Sequences - CASP13

125

0/2352

Others,
University of California, Davis,
Andriy Kryshtafovych

From Adam Frost:

eIF2B

X-RAY

>sp|Q14232|EI2BA_HUMAN Translation initiation factor eIF-2B subunit alpha OS=Homo sapiens OX=9606 GN=EIF2B1 PE=1 SV=1
MDDKELIEYFKSQMKEDPDMASAVAAIRTLLEFLKRDKGETIQGLRANLTSAIETLCGVDSSVAVSSGGELFLRFISLASLEYSDYSKCKKIMIERGELFLRRISLSRNKIADLCHTFIKDGATILTHAYSRVVLRVLEAAVAAKKRFSVYVTESQPDLSGKKMAKALCHLNVPVTVVLDAAVGYIMEKADLVIVGAEGVVENGGIINKIGTNQMAVCAKAQNKPFYVVAESFKFVRLFPLNQQDVPDKFKYKADTLKVAQTGQDLKEEHPWVDYTAPSLITLLFTDLGVLTPSAVSDELIKLYL
>sp|P49770|EI2BB_HUMAN Translation initiation factor eIF-2B subunit beta OS=Homo sapiens OX=9606 GN=EIF2B2 PE=1 SV=3
MPGSAAKGSELSERIESFVETLKRGGGPRSSEEMARETLGLLRQIITDHRWSNAGELMELIRREGRRMTAAQPSETTVGNMVRRVLKIIREEYGRLHGRSDESDQQESLHKLLTSGGLNEDFSFHYAQLQSNIIEAINELLVELEGTMENIAAQALEHIHSNEVIMTIGFSRTVEAFLKEAARKRKFHVIVAECAPFCQGHEMAVNLSKAGIETTVMTDAAIFAVMSRVNKVIIGTKTILANGALRAVTGTHTLALAAKHHSTPLIVCAPMFKLSPQFPNEEDSFHKFVAPEEVLPFTEGDILEKVSVHCPVFDYVPPELITLFISNIGGNAPSYIYRLMSELYHPDDHVL
>sp|Q9UI10|EI2BD_HUMAN Translation initiation factor eIF-2B subunit delta OS=Homo sapiens OX=9606 GN=EIF2B4 PE=1 SV=2
MAAVAVAVREDSGSGMKAELPPGPGAVGREMTKEEKLQLRKEKKQQKKKRKEEKGAEPETGSAVSAAQCQVGPTRELPESGIQLGTPREKVPAGRSKAELRAERRAKQEAERALKQARKGEQGGPPPKASPSTAGETPSGVKRLPEYPQVDDLLLRRLVKKPERQQVPTRKDYGSKVSLFSHLPQYSRQNSLTQFMSIPSSVIHPAMVRLGLQYSQGLVSGSNARCIALLRALQQVIQDYTTPPNEELSRDLVNKLKPYMSFLTQCRPLSASMHNAIKFLNKEITSVGSSKREEEAKSELRAAIDRYVQEKIVLAAQAISRFAYQKISNGDVILVYGCSSLVSRILQEAWTEGRRFRVVVVDSRPWLEGRHTLRSLVHAGVPASYLLIPAASYVLPEVSKVLLGAHALLANGSVMSRVGTAQLALVARAHNVPVLVCCETYKFCERVQTDAFVSNELDDPDDLQCKRGEHVALANWQNHASLRLLNLVYDVTPPELVDLVITELGMIPCSSVPVVLRVKSSDQ
>sp|Q13144|EI2BE_HUMAN Translation initiation factor eIF-2B subunit epsilon OS=Homo sapiens OX=9606 GN=EIF2B5 PE=1 SV=3
MAAPVVAPPGVVVSRANKRSGAGPGGSGGGGARGAEEEPPPPLQAVLVADSFDRRFFPISKDQPRVLLPLANVALIDYTLEFLTATGVQETFVFCCWKAAQIKEHLLKSKWCRPTSLNVVRIITSELYRSLGDVLRDVDAKALVRSDFLLVYGDVISNINITRALEEHRLRRKLEKNVSVMTMIFKESSPSHPTRCHEDNVVVAVDSTTNRVLHFQKTQGLRRFAFPLSLFQGSSDGVEVRYDLLDCHISICSPQVAQLFTDNFDYQTRDDFVRGLLVNEEILGNQIHMHVTAKEYGARVSNLHMYSAVCADVIRRWVYPLTPEANFTDSTTQSCTHSRHNIYRGPEVSLGHGSILEENVLLGSGTVIGSNCFITNSVIGPGCHIGDNVVLDQTYLWQGVRVAAGAQIHQSLLCDNAEVKERVTLKPRSVLTSQVVVGPNITLPEGSVISLHPPDAEEDEDDGEFSDDSGADQEKDKVKMKGYNPAEVGAAGKGYLWKAAGMNMEEEEELQQNLWGLKINMEEESESESEQSMDSEEPDSRGGSPQMDDIKVFQNEVLGTLQRGKEENISCDNLVLEINSLKYAYNISLKEVMQVLSHVVLEFPLQQMDSPLDSSRYCALLLPLLKAWSPVFRNYIKRAADHLEALAAIEDFFLEHEALGISMAKVLMAFYQLEILAEETILSWFSQRDTTDKGQQLRKNQQLQRFIQWLKEAEEESSEDD
>sp|Q9NR50|EI2BG_HUMAN Translation initiation factor eIF-2B subunit gamma OS=Homo sapiens OX=9606 GN=EIF2B3 PE=1 SV=1
MEFQAVVMAVGGGSRMTDLTSSIPKPLLPVGNKPLIWYPLNLLERVGFEEVIVVTTRDVQKALCAEFKMKMKPDIVCIPDDADMGTADSLRYIYPKLKTDVLVLSCDLITDVALHEVVDLFRAYDASLAMLMRKGQDSIEPVPGQKGKKKAVEQRDFIGVDSTGKRLLFMANEADLDEELVIKGSILQKHPRIRFHTGLVDAHLYCLKKYIVDFLMENGSITSIRSELIPYLVRKQFSSASSQQGQEEKEEDLKKKELKSLDIYSFIKEANTLNLAPYDACWNACRGDRWEDLSRSQVRCYVHIMKEGLCSRVSTLGLYMEANRQVPKLLSALCPEEPPVHSSAQIVSKHLVGVDSLIGPETQIGEKSSIKRSVIGSSCLIKDRVTITNCLLMNSVTVEEGSNIQGSVICNNAVIEKGADIKDCLIGSGQRIEAKAKRVNEVIVGNDQLMEI

2018-7-9

2019-1-1

2.

131

414/404

Others,
University of California, San Diego,
Steven Rees

Our lab has a high-resolution X-ray dataset for this protein (2.3 angstroms), but its low homology to previously solved structures (_25%) has made it difficult to solve. We have used Rosetta, MOE, and other fragment-based and homology-generating programs_tools to try to generate a starting model, to no avail when it comes to molecular replacement. We are pursuing means of generating anomalous data, but it would be great to see what your team can come up with as a possible model to try in fitting the data. In return, we are happy to share the results of the X-ray data for comparisons to your model, and to cite the Prediction Center as appropriate for any contributions.

Sia 5524

X-RAY

>5524
MDDNVNDFRPVPYPDEVVGLNPDPDFEPIWEIASPTITVFSSKASNDISYRVPAIAVTKKGSILVFCEARYGTWQDKAGRTDILMKRSTDKGITWTEKNLTNQATSSKLSYMDPTVVVDQVTGKIFLFTSLWDAVGKESAKQGYNNRAIMYTSEDDGLNWTRKDLTDEVEIGIFSGATRMIGSFGPGSGVQMTSSEQYKNRLIVPIRTFKVNEAAGTVSNGGNTAMWSDDNGGTWETGQPNKSGEWMVTEAPDGALIGNIRYNGHRQNYVSTDGGAKWPSFSDYDPIALPTPAKGCAGSVIVKDGWMYYCGAKGIIETTAHDDRGILYLAKAKFFGGHSHTFDPADHMVLYDKAAGYTCMALLPDGDMAIVAELGNEPGFQKLSTRPAEWMRLELFILSTKKPL

2019-8-9

2019-12-15

3.

130

977/977

Others,
,

Q9UBN4

EM

>sp|Q9UBN4|TRPC4_HUMAN Short transient receptor potential channel 4 OS=Homo sapiens OX=9606 GN=TRPC4 PE=1 SV=1
MAQFYYKRNVNAPYRDRIPLRIVRAESELSPSEKAYLNAVEKGDYASVKKSLEEAEIYFKININCIDPLGRTALLIAIENENLELIELLLSFNVYVGDALLHAIRKEVVGAVELLLNHKKPSGEKQVPPILLDKQFSEFTPDITPIILAAHTNNYEIIKLLVQKGVSVPRPHEVRCNCVECVSSSDVDSLRHSRSRLNIYKALASPSLIALSSEDPFLTAFQLSWELQELSKVENEFKSEYEELSRQCKQFAKDLLDQTRSSRELEIILNYRDDNSLIEEQSGNDLARLKLAIKYRQKEFVAQPNCQQLLASRWYDEFPGWRRRHWAVKMVTCFIIGLLFPVFSVCYLIAPKSPLGLFIRKPFIKFICHTASYLTFLFLLLLASQHIDRSDLNRQGPPPTIVEWMILPWVLGFIWGEIKQMWDGGLQDYIHDWWNLMDFVMNSLYLATISLKIVAFVKYSALNPRESWDMWHPTLVAEALFAIANIFSSLRLISLFTANSHLGPLQISLGRMLLDILKFLFIYCLVLLAFANGLNQLYFYYEETKGLTCKGIRCEKQNNAFSTLFETLQSLFWSIFGLINLYVTNVKAQHEFTEFVGATMFGTYNVISLVVLLNMLIAMMNNSYQLIADHADIEWKFARTKLWMSYFEEGGTLPTPFNVIPSPKSLWYLIKWIWTHLCKKKMRRKPESFGTIGRRAADNLRRHHQYQEVMRNLVKRYVAAMIRDAKTEEGLTEENFKELKQDISSFRFEVLGLLRGSKLSTIQSANASKESSNSADSDEKSDSEGNSKDKKKNFSLFDLTTLIHPRSAAIASERHNISNGSALVVQEPPREKQRKVNFVTDIKNFGLFHRRSKQNAAEQNANQIFSVSEEVARQQAAGPLERNIQLESRGLASRGDLSIPGLSEQCVLVDHRERNTDTLGLQVGKRVCPFKSEKVVVEDTVPIIPKEKHAKEEDSSIDYDLNLPDTVTHEDYVTTRL

2019-7-22

2018-1-1

4.

129

0/65

Others,
university of granada,
alexander garcia

WP_080024659.1

NMR

>WP_080024659.1 hypothetical protein [Helicobacter pylori]
MIIKWIIKKLDFNGAIKTLRELETKPTLSNHYRNGYSVSNLNGDNPTTNEFKTQEPQRTKQYIKK

2019-6-2

2018-1-1

5.

128

0/65

Others,
university of granada,
alexander garcia

WP_080024659.1

NMR

>WP_080024659.1 hypothetical protein [Helicobacter pylori]
MIIKWIIKKLDFNGAIKTLRELETKPTLSNHYRNGYSVSNLNGDNPTTNEFKTQEPQRTKQYIKK

2019-6-2

2018-1-1

6.

127

0/683

Others,
Universitas Al Azhar Indonesia,
Tanda Jatiningsih

P22067

X-RAY

>MGSNSGQAGRHIYKSLADDGPFDSVEPPKRPTSRLIMHSMAMFGREFCYAVEAAYVTPVL
LSVGLPSSLYSIVWFLSPILGFLLQPVVGSASDHCRSRWGRRRPYILTLGVMMLVGMALYLNGATVVAALIANPRRKLVWAISVTMIGVVLFDFAADFIDGPIKAYLFDVCSHQDKEKGLHYHALFTELDTTFKKLQSWPGVVAHTCNPNTVGGQGSLGTIQMHLSSAKLAGAGLDLVTAAAAGAREAEKNQNDFLMNPMGRWEFFSLSSFRGFGGALGYLLGAIDWAHLELGRLLGTEFQVMFFFSALVLTLCFTVHLCSISEAPLTEVAKGIPPQQTPQDPPLSSDGMYEYGSIEKVKNGYVNPELAMQGAKNKNHAEQSLSGNSQERGNFGRNRYRNRVPWQEQEQWIQRGSIQRCRSTVFSLAAWRRILVLFDSPSPRSQNSKITSWTGALCAFMQDSQRITEYLYDNIHAVIKNVCFRRFTKNISAGENSVLFKGSWNLVRINQTRRAMTLKSLLRALVNMPPHYRYLCISHLIGWTAFLSNMLFFTDFMGQIVYRGDPYSAHNSTEFLIYERGVEVGCWGLCINSVFSSLYSYFQKVLVSYIGLKGLYFTGYLLFGLGTGFIGLFPNVYSTLVLCSLFGVMSSTLYTVPFNLITEYHREEEKERQQAPGGDPDNSVRGKGMDCATLTCMVQLAQILVGGGLGFLVNTAGTVVVVVITASAVALIGCCFVALFVRYVD

2018-7-21

2018-1-1

7.

74

---

178/178

Others,
UCIBIO_REQUIMTE, FCT_NOVA,
Ana Luisa Carvalho

Finding the determinants for specificity for beta-1,4-1,3 mixed linked oligosaccharides, indicated by glycan microarrays and ITC.

Already in the PDB
easy, serv

CtCBM11

X-RAY

>CtCBM11
MASAVGEKMLDDFEGVLNWGSYSGEGAKVSTKIVSGKTGNGMEVSYTGTTDGYWGTVYSLPDGDWSKWLKISFDIKSVDGSANEIRFMIAEKSINGVGDGEHWVYSITPDSSWKTIEIPFSSFRRRLDYQPPGQDMSGTLDLDNIDSIHFMYANNKSGKFVVDNIKLIGALEHHHHHH

2018-4-14

2018-1-1

8.

30

T0949

183/183

Others,
CNRS,
marianne Ilbert

AcoP belongs to a family of copper binding protein well known as cupredoxin. A lot of structure has been solved and most of them have been described as electron shuttle. However recently few of them have been shown to play a role of metallochaperones . AcoP belongs to a respiratory chain spanning the outer membrane to the inner membrane (rare_) of an acidophilic bacteria and couple the oxidation of iron and the reduction of oxygen. Proteins involved in this chain are periplasmic and function at pH3. AcoP function in this respiratory chain is totally unknown. We know this protein has a transmembrane segment in the inner membrane  and seems tightly bound to the cytochrome oxidase. Another of its partner will be a cytochrome c. Their binding sites are still unknown. Describing its spectroscopic features demonstrate interesting new properties and motivate us to solve the structure. Getting the structure, we have indeed some regions of interest that we are studying right now to determine their role and that should help us to determine the exact function of this protein.

B7JAQ5_ACIF2

X-RAY

>AcoP from acidithiobacillus ferrooxidans
MAAKKGMTTVLVSAVICAGVIIGALQWEKAVALPNPSGQVINGVHHYTIDEFNYYYKPDRMTWHVGEKVELTIDNRSQSAPPIAHQFSIGRTLVSRDNGFPKSQAIAVGWKDNFFDGVPITSGGQTGPVPAFSVSLNGGQKYTFSFVVPNKPGKWEYGCFLQTGQHFMNGMHGILDILPAQGS

2018-1-25

2018-12-1

9.

87

T0950

353/353

Others,
University of California, Davis,

PDBID:  6ek4
Status: HPUB -- hold until publication
Title:  PaxB from Photorhabdus luminescens
Authors:        Braeuning, B., Groll, M.
Email: michael.groll_tum.de
Deposition date:        2017-09-24

PaxB

X-RAY

>PaxB
MSEIITFPQQTVVYPEINVKTLSQAVKNIWRLSHQQKSGIEIIQEKTLRISLYSRDLDEAARASVPQLQTVLRQLPPQDYFLTLTEIDTELEDPELDDETRNTLLEARSEHIRNLKKDVKGVIRSLRKEANLMASRIADVSNVVILERLESSLKEEQERKAEIQADIAQQEKNKAKLVVDRNKIIESQDVIRQYNLADMFKDYIPNISDLDKLDLANPKKELIKQAIKQGVEIAKKILGNISKGLKYIELADARAKLDERINQINKDCDDLKIQLKGVEQRIAGIEDVHQIDKERTTLLLQAAKLEQAWNIFAKQLQNTIDGKIDQQDLTKIIHKQLDFLDDLALQYHSMLLS

2018-4-26

2018-5-15

10.

55

T0951

276/276

Others,
Computational Bioscience Research Center _CBRC_, King Abdullah University of Science and Technology,
Stefan Arold

Striga is a parasitic weed which affects host plants such as rice through sensitizing the presence of Stigolcatones (SLs) and recognize it through a set of 11 receptors such as ShHTL 1-11. Among ShHTL family members, ShHTL7 stands out as the receptor that binds in vitro to all SLs tested with high affinity. It is one of the receptors which recognizes the presence of host next to it and help in infesting them to get all of their nutrients. 
---
We have one ~60% identical protein structure bound to the triton hydrophobic tail group; this hydrophobic moiety is deeply and completely bound in the protein pocket which normally only binds to very different ligands. __Special attention: This binding also requires two helices to shift by ~2 A as compared to the closest homologue.

easy, server

ShHTL7

X-RAY

>ShHTL7
GPLGSMSSIGLAHNVTILGSGETTVVLGHGYGTDQSVWKLLVPYLVDDYKVLLYDHMGAGTTNPDYFDFDRYSSLEGYSYDLIAILEEFQVSKCIYVGHSMSSMAAAVASIFRPDLFHKLVMISPTPRLINTEEYYGGFEQKVMDETLRSLDENFKSLSLGTAPLLLACDLESAAMQEYCRTLFNMRPDIACCITRMICGLDLRPYLGHVTVPCHIIQSSNDIMVPVAVGEYLRKNLGGPSVVEVMPTEGHLPHLSMPEVTIPVVLRHIRQDITDH

2018-4-3

2018-1-1

11.

46

T0952

35/35

Others,
University of Copenhagen,
Leila Lo Leggio

This is the dimerization domain of the CI repressor from TP901-1 ( a temperate phage) involved in controlling its lysogeny switch
We have SAXS for this in the context of a bigger construct

2mer, human

O48503

X-RAY

>CTD1 
ENIEETITVMKKLEEPRQKVVLDTAKIQLKEQDEQ

2018-3-21

2018-10-1

12.

51

H0953

465/321

Others,
UTMB,
Petr Leiman

The adhesin tip of the bacteriophage S16 long tail fiber mediates bacterial host attachment by recognising specific cell surface receptors. A single receptor-binding adhesin (gp38) attaches to a trimeric gp37 helix during fiber assembly at the end of the long tail fiber. Understanding the structure of the S16 gp38 adhesin not only benefits our understanding of phage-host interactions, but can be exploited to guide phage engineering to develop phage with altered host ranges for various applications, such as therapeutics (e.g., phage therapy).

Adhesin tip

X-RAY

>S16LTF_gp37:A3
GALGSASIAIGDNDTGLRWGGDGIVQIVANNAIVGGWNSTDIFTEAGKHITSNGNLNQWGGGAIYCRDLNVS
>S16LTF_gp38:B1
MAVQGPWVGSSYVAETGQNWASLAANELRVTERPFWISSFIGRSKEEIWEWTGENHSFNKDWLIGELRNRGGTPVVINIRAHQVSYTPGAPLFEFPGDLPNAYITLNIYADIYGRGGTGGVAYLGGNPGGDCIHNWIGNRLRINNQGWICGGGGGGGGFRVGHTEAGGGGGRPLGAGGVSSLNLNGDNATLGAPGRGYQLGNDYAGNGGDVGNPGSASSAEMGGGAAGRAVVGTSPQWINVGNIAGSWL

2018-3-22

2018-6-1

13.

67

T0954

350/350

Others,
SGC, University of Oxford,
Brian Marsden

RFWD3_HUMAN

X-RAY

>RFWD3
SPSSQGQHKHKYHFQKTFTVSQAGNCRIMAYCDALSCLVISQPSPQASFLPGFGVKMLSTANMKSSQYIPMHGKQIRGLAFSSYLRGLLLSASLDNTIKLTSLETNTVVQTYNAGRPVWSCCWCLDEANYIYAGLANGSILVYDVRNTSSHVQELVAQKARCPLVSLSYMPRAASAAFPYGGVLAGTLEDASFWEQKMDFSHWPHVLPLEPGGCIDFQTENSSRHCLVTYRPDKNHTTIRSVLMEMSYRLDDTGNPICSCQPVHTFFGGPTCKLLTKNAIFQSPENDGNILVCTGDEAANSALLWDAASGSLLQDLQTDQPVLDICPFEVNRNSYLATLTEKMVHIYKWE

2018-4-10

2018-7-31

14.

60

T0955

41/41

Others,
University of California, Davis,

PDBID:  5w9f
Status: HPUB -- hold until publication
Title:  Solution structure of the de novo mini protein gHEEE_02
Authors:        Szyperski, T., Pulavarti, S.V.S.R.K., Shaw, E.A., Bahl, C.D., Garry, B.W., Baker, D. 

I got in touch with David Baker and Chris Bahl. We think that gHEEE_02 is a viable target for CASP. However, please note that in https:__www.ncbi.nlm.nih.gov_pubmed_27626386 David_s design model, CD data and MS data confirming that the S-S bonds of gHEEE_02 were designed accurately were published. May be, this should be brought to the attention of all participants_

human

gHEEE_02

NMR

>gHEEE_02
SQETRKKCTEMKKKFKNCEVRCDESNHCVEVRCSDTKYTLC

2018-4-6

2018-1-1

15.

45

T0956

178/178

Others,
Pacific Northwest National Laboratory,
Garry Buchko

We have assigned the 1H-15N HSQC spectrum, have most of the C-alpha and C-beta chemical shifts, and a good 15N-edited NOESY spectrum.  However, cannot get good C13-editing NOESY data to get a structure.  Know the b-sheet arrangement from NMR data.  We have an XRD data set, but cannot phase because no structure of this family in PDB.  Ideally, with a good model we will be able to phase our XRD data and solve the structure.

hard, have some sparse data, but no structure; hope for good MR model

K0A2T3

X-RAY

>Rh19
SATMAFHPMLCRLELSVSAAPPASPIDATLLRSLITSVLNSSWVDLGGNTANEKVLCAIGLIEAFCRERVIPPTSNSFNTSVTYHIMVEDLDPDDLGNIQLINKPLLSLEGDLKVLGSYQLTFQTIPGHSEPRSMTDNGIYHSDSPFFQIALGHALLGTGKIYDHITRALRVAPITIA

2018-3-20

2018-12-31

16.

31

H0957

329/327

Others,
Argonne National Laboratory,
Karolina Michalska

This structure represents a novel Contact Dependent growth Inhibition (CDI) complex. Protein A is a toxin (CdiA), ribonuclease, while protein B is an immunity protein (CdiI) that blocks activity of the toxin.

CdiA_CdiI-CPX200209

X-RAY

>CPX200209:A
SNSFEVSSLPDANGKNHITAVKGDAKIPVDKIELYMRGKASGDLDSLQAEYNSLKDARISSQKEFAKDPNNAKRMEVLEKQIHNIERSQDMARVLEQAGIVNTASNNSMIMDKLLDSAQGATSANRKTSVVVSGPNGNVRIYATWTILPDGTKRLSTVTGTFK
>CPX200209:B
SNAMINVNSTAKDIEGLESYLANGYVEANSFNDPEDDALECLSNLLVKDSRGGLSFCKKILNSNNIDGVFIKGSALNFLLLSEQWSYAFEYLTSNADNITLAELEKALFYFYCAKNETDPYPVPEGLFKKLMKRYEELKNDPDAKFYHLHETYDDFSKAYPLNN

2018-1-31

2018-10-1

17.

41

T0958

96/96

Others,
The University of Chicago,
Phoebe Rice

We identified this protein as part of our analysis of the conserved _housekeeping_ genes carried by SCCmec, the mobile genetic element that carries methicillin resistance in MRSA strains.  
It is encoded in the same operon as a helicase, Cch, that we also determined the structure of.
We found that this protein binds ssDNA with high affinity and modest cooperativity.  We determined its structure because it was only labeled _DUF1413_ in databases, and its predicted secondary structure did not match that of the OB folds that are common in ssDNA-binding proteins.

medium, human

LP1413

X-RAY

>gi|87126349|gb|ABD20863.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus USA300_FPR3757]
MNKKSKQQEKLYNFIIAKSFQQPVGSTFTYGELRKKYNVVCSTNDQREVGRRFAYWIKYTPGLPFKIVGTKNGSLLYQKIGINPCNNSTPSKGGDC

2018-3-5

2018-6-1

18.

35

T0959

189/189

Others,
Centro Nacional de Biotecnologia, Consejo Superior de Investigaciones Cientificas (CNB-CSIC),
Mark van Raaij

putative glycosyl hydrolase, GenBank: ARW58837.1.
From sequence and genome location, this protein is predicted to be the phage endolysin, responsible for degrading the host peptidoglycan after infection. However, this has not been biochemically demonstrated yet. Determining the structure was thought to help determine function.

server

Endolysin ARW58837.1

X-RAY

>Y3_197endolysin:A
MDALTFRKNAIAEVIDREGGSKYTNRAADRGGPTRWGVTEKNARAYGYKGDMQNLPYEIAYAIYSANFWDFCKCDEIAKYSQELALWMFDYAVNSGPPAAIAELQDQLNILNQRGKLYPDFAPAANIGPKTLAALAAYCKVRDIKVLAYAFNGCRIAKLKNIAKADETQEDNIYGWYQRVITITKQVGV

2018-2-28

2021-12-31

19.

58

T0960

384/384

Others,
University of California, Davis,

PDB ID          : 6CL5
Title           : Structure of P. aeruginosa R1 pyocin fiber PALES_06171 comprising C-terminal residues 323-701 (CASP target)
Author          : Buth, S.A., Shneider, M.M., Leiman, P.G.
Deposition Date : 2018-03-01

BLAST:
Chain A, Crystal structure of the tail fiber gp53 from Acinetobacter baumannii bacteriophage AP22	34.3 	34.3 	15% 	0.10	29% 	4MTM_A

3mer, hard

PALES_06171

X-RAY

>PALES_06171
SGSEFVTAGMALAATDIPGLDASKLVSGVLAEQRLPVFARGLATAVSNSSDPNTATVPLMLTNHANGPVAGRYFYIQSMFYPDQNGNASQIATSYNATSEMYVRVSYAANPSIREWLPWQRCDIGGSFTKTTDGSIGNGVNINSFVNSGWWLQSTSEWAAGGANYPVGLAGLLIVYRAHADHIYQTYVTLNGSTYSRCCYAGSWRPWRQNWDDGNFDPASYLPKAGFTWAALPGKPATFPPSGHNHDTSQITSGILPLARGGLGANTAAGARNNIGAGVPATASRALNGWWKDNDTGLIVQWMQVNVGDHPGGIIDRTLTFPIAFPSACLHVVPTVKEVGRPATSASTVTVADVSVSNTGCVIVSSEYYGLAQNYGIRVMAIGY

2018-4-6

2018-1-1

20.

33

T0961

505/505

Others,
UC DAVIS,

We wanted to check the substrate binding pocket - have since confirmed it can bind a C10-CoA lipid (both biochemically, and structurally)

From Andrew Lovering.
Very easy. Server.

Q6MJ59

X-RAY

>Q6MJ59
MKNFYQDGPQLSNTFRSDEALQKILKSLLPADAQKVALPHLEHLGERAVTDMLTWAQEAESQPPVHVPFDPWGRRIDDIKTSHGWKALEKVAAEEGIVATAYDRRFGAASRVYQMALLYLYSPSSAIFSCPLAMTDGAARALELYADADLKARVLPHLLSRDPKTFWTAGQWMTERTGGSDVSGTSTDAHPFTGTSEFGATHSLHGTKWFTSATTSQMALTLARPDGAAPGSRGLSLFFLELRNDKGELNHIQIHRLKDKLGTKALPTAELSLQGTPARMIGGVGEGVKRIASVLNITRIYNSICAVGHIRRALDLAQDYSGKRQAFGKLLKDHPLHKSTLDSLEADFRKCIAFSFFVANLLGQEEVGEASASEKILLRVLTPILKLYTAKKSIHISSEVVEMFGGAGYVEDTGIPRLLRDAQVFSIWEGTTNVLSLDMLRAFEKDQAGQILEQFLVLNEAGSEELVRLQKLLTLSGEQKEQHAREIAFLIGNAVARIAMKKYSL

2018-2-22

2019-1-1

21.

34

T0962

220/220

Others,
Centro Nacional de Biotecnologia, Consejo Superior de Investigaciones Cientificas (CNB-CSIC),
Mark van Raaij

Pseudomonas phage endolysin NCBI Reference Sequence.
From sequence and genome location, this protein is predicted to be the phage endolysin, responsible for degrading the host peptidoglycan after infection. However, this has not been biochemically demonstrated yet. Determining the structure was thought to help determine function.

very easy

Endolysin KPP12

X-RAY

>endolysin:A
MKITKDILITGTGCTTDRAIKWLDDVQAAMDKFHIESPRAIAAYLANIGVESGGLVSLVENLNYSAQGLANTWPRRYAVDPRVRPYVPNALANRLARNPVAIANNVYADRMGNGCEQDGDGWKYRGRGLIQLTGKSNYSLFAEDSGMDVLEKPELLETPAGASMSSAWFFWRNRCIPMAESNNFSMVVKTINGAAPNDANHGQLRINRYMKTIAAINQGS

2018-2-28

2021-12-31

22.

59

T0963

372/372

Others,
University of California, Davis,

PDB ID          : 6CL6
Title           : Structure of P. aeruginosa R2 pyocin fiber PA0620 comprising C-terminal residues 323-691 (CASP target)
Author          : Buth, S.A., Shneider, M.M., Leiman, P.G.
Deposition Date : 2018-03-01

BLAST:
Chain A, Crystal structure of the tail fiber gp53 from Acinetobacter baumannii bacteriophage AP22 	36.6 	36.6 	44% 	0.019	26% 	4MTM_A

hard, trimer

PA0620

X-RAY

>PA0620
SGSVTAGMALAATDIPGLDASKLVSGVLAEQRLPVFARGLATAVSNSSDPNTATVPLMLTNHANGPVAGRYFYIQSMFYPDQNGNASQIATSYNATSEMYVRVSYAANPSIREWLPWQRCDIGGSFTKEADGELPGGVNLDSMVTSGWWSQSFTAQAASGANYPIVRAGLLHVYAASSNFIYQTYQAYDGESFYFRCRHSNTWFPWRRMWHGGDFNPSDYLLKSGFYWNALPGKPATFPPSAHNHDVGQLTSGILPLARGGVGSNTAAGARSTIGAGVPATASLGASGWWRDNDTGLIRQWGQVTCPADADASITFPIPFPTLCLGGYANQTSAFHPGTDASTGFRGATTTTAVIRNGYFAQAVLSWEAFGR

2018-4-6

2018-1-1

23.

76

T0964

184/184

Others,
University of California, Davis,

From Shabir:

CBM56 - a Carbohydrate Binding Module from a beta-1,3-glucanase _Bacillus circulans_ - 694 to 877 (184 aa) of Sequence ID: AAC60453.1 Length: 877.

We tried to solve the structure of both parts of the CBM56, got crystals and some data, but weren_t able to solve it. So we took the second part - CBM56b and used SeMet-derivatised crystals to solve it. So this CBM56b would be the target and I am attaching the pdb for it. However, I thought it would be more interesting to see if the predictors could try modelling the whole thing and see if they can get sensible arrangements for the two parts - solved (CBM56b) and unsolved (CBM56a).

These are the sequences:

_ CBM56 - complete
NVPVTGVTVNPTTAQVEVGQSVQLNASVAPSNATNKQVTWSVSGSSIASVSPNGLVTGLAQGTTTVTATTADGNKAASATITVAPAPSTVIVIGDEVKGLKKIGDDLLFYVNGATFADLHYKVNNGGQLNVAMAPTGNGNYTYPVHNLKHGDTVEYFFTYNPGQGALDTPWQTYVHGVTQGTPE

_ CBM56_A
NVPVTGVTVN PTTAQVEVGQ SVQLNASVAP SNATNKQVTW SVSGSSIASV SPNGLVTGLA QGTTTVTATT ADGNKAASAT ITVAPAPSTV IVIGD

_ CBM56_B
VIVIGDEVKGLKKIGDDLLFYVNGATFADLHYKVNNGGQLNVAMAPTGNGNYTYPVHNLKHGDTVEYFFTYNPGQGALDTPWQTYVHGVTQGTPE 

At first we thought the whole sequence was one complete thing, but on closer analysis we realised that it_s probably two independent tandem CBM modules. Even though we got crystals of the protein with both modules i.e. CBM56a and b, there is probably a flexible linker between them and the arrangement between the two modules is not homogeneous in the crystals. Hence we didn_t get good data to be able to solve it. I haven_t looked at it in great detail recently so am a bit hazy about it, but I think the modules should be homologous and both should have a similar structure to the one we have solved (CBM56b). So the interest would be to see if they are likely to pair up or be totally flexible and be independent.

human

CBM56

X-RAY

>CBM56
NVPVTGVTVNPTTAQVEVGQSVQLNASVAPSNATNKQVTWSVSGSSIASVSPNGLVTGLAQGTTTVTATTADGNKAASATITVAPAPSTVIVIGDEVKGLKKIGDDLLFYVNGATFADLHYKVNNGGQLNVAMAPTGNGNYTYPVHNLKHGDTVEYFFTYNPGQGALDTPWQTYVHGVTQGTPE

2018-4-16

2018-1-1

24.

54

T0965

334/334

Others,
Rice University,
Jonathan Clinger

Protein is an NADP dependent reductase involved in the biosynthesis of the natural product terfestatin. Polyporic acid is thought to be it_s substrate.

easy, server

NADP reductase

X-RAY

>TerB
MGSSHHHHHHSSGLVPRGSHMEGKKILVTGGTGQVARPVAEALAERNEVWCLGRFGTPGVEKELNDRGITTFHWDMDDPGAAAYEGLPDDFTHVLHSAVRRGEDGDVNAAVEVNSVACGRLMTHCRGAEAFLFVSTGALYKRQTLDHAYTEDDPVDGVADWLPAYPVGKIAAEGAVRAFAQVLNLPTTIARLNIAYGPGGYGGVPMLYFKRMLAGEPIPVPKEGQNWCSLLHTDDLVAHVPRLWEAAATPATLVNWGGDEAVGITDCVRYLEELTGVRARLVPSEVTRETYRFDPTRRREITGPCRVPWREGVRRTLQALHPEHLPSESRHSAV

2018-4-2

2018-1-1

25.

88

T0966

494/494

Others,
Northwestern University, Feinberg School of Medicine,
George Minasov

The MARTX effector domain Ras_Rap1-specific endopeptidase (RRSP) has been directly linked to highly virulent isolates of Vibrio vulnificus, a motile Gram-negative opportunistic human pathogen that causes rapidly progressing, life-threatening sepsis from ingesting contaminated seafood or exposing open wounds to seawater. V. vulnificus strains producing a MARTXVv toxin that carries RRSP show about 50-fold increased virulence in mice. This potent cytotoxicity of RRSP is due to its direct inhibition of the mitogen-activated protein kinases pathway (MAPK) by proteolytic processing of the small guanosine triphosphatases (GTPases) Ras and Rap1. Processing of Ras prevents the phosphorylation and activation of extracellular signal_regulated kinases (ERK). RRSP specifically recognizes the Switch I of Ras and Rap1 and then cleaves the Switch I between the Y32 and D33 residues. This activity is also found in toxins of other bacteria, including Photorhabdus spp. insect pathogens and Aeromonas spp. pathogens of fish.

dimer, has 1 template 2ebf, human

Ras/Rap1 site-specific endopeptidase

X-RAY

>RasRap1
QELKERAKVFAKPIGASYQGILDQLDLVHQAKGRDQIAASFELNKKINDYIAEHPTSGRNQALTQLKEQVTSALFIGKMQVAQAGIDAIAQTRPELAARIFMVAIEEANGKHVGLTDMMVRWANEDPYLAPKHGYKGETPSDLGFDAKYHVDLGEHYADFKQWLETSQSNGLLSKATLDESTKTVHLGYSYQELQDLTGAESVQMAFYFLKEAAKKADPISGDSAEMILLKKFADQSYLSQLDSDRMDQIEGIYRSSHETDIDAWDRRYSGTGYDELTNKLASATGVDEQLAVLLDDRKGLLIGEVHGSDVNGLRFVNEQMDALKKQGVTVIGLEHLRSDLAQPLIDRYLATGVMSSELSAMLKTKHLDVTLFENARANGMRIVALDANSSARPNVQGTEHGLMYRAGAANNIAVEVLQNLPDGEKFVAIYGKAHLQSHKGIEGFVPGITHRLDLPALKVSDSNQFTVEQDDVSLRVVYDDVANKPKITFKGSL

2018-4-27

2018-6-20

26.

70

T0967

81/81

Others,
ben_Gurion University of the Negev,
Noa Keren

CTD domain

easy, serv

MamB, Magnetosome protein

X-RAY

>CCO06676.1 Magnetosome membrane protein MamB, putative Co/Zn/Cd cation transporter. Cation diffusion facilitator family [Candidatus Desulfamplus magnetomortis BW-1]
EDYIEAIANVLEKTPSISDVKDIIARELGQVLEFEIDLYVPPDITVTTGERIKKEVNQIIKEIVDRKSTVKVRLFAAQEEL

2018-4-10

2019-1-31

27.

32

H0968

242/242

Others,
Argonne National Laboratory,
Karolina Michalska

This is a novel Contact-Dependent growth Inhibition (CDI) complex. The CdiA protein (A), is a ribonuclease toxin while CdiI (B) is an immunity protein that prevents CdiI from catalysis.

hard

B5Y0C2

X-RAY

>CPX200215:A
VPEITTAQTIANSVVDAKKFDYLFGKATGNSHTLDRTNQLALEMKRLGVADDINGHAVLAEHFTQATKDSNNIVKKYTDQYGSFEIRESFFIGPSGKATVFESTFEVMKDGSHRFITTIPKNGVTK
>CPX200215:B
MFIENKPGEIELLSFFESEPVSFERDNISFLYTAKNKCGLSVDFSFSVVEGWIQYTVRLHENEILHNSIDGVSSFSIRNDNLGDYIYAEIITKELINKIEIRIRPDIKIKSSSVIR

2018-1-31

2018-10-1

28.

52

T0969

487/487

Others,
National Renewable Energy Laboratory,
Markus Alahuhta

xylan O-acetyltransferase, catalytic triad Ser217-His466-Asp463 flanked by 444-449 and 274-282, glycosylated at 152, 242, 256, 394, 413 and 426

hard

XOAT1

X-RAY

> XOAT1
MQPWRRKFPLFETGVTMKQRKNSNLSIFVVVFSVFLFGIFMYNEDVKSIAEFPFSTSKPHDVHDEATPITEITTLPVQESIKNSDPIQESIKNADSVQDSVKDVAEPVQEEVSKTEEVKKIELFAATEDEEDVELPPEECDLFTGEWVFDNETHPLYKEDQCEFLTAQVTCMRNGRRDSLYQNWRWQPRDCSLPKFKAKLLLEKLRNKRMMFVGDSLNRNQWESMVCLVQSVVPPGRKSLNKTGSLSVFRVEDYNATVEFYWAPFLVESNSDDPNMHSILNRIIMPESIEKHGVNWKGVDFLVFNTYIWWMNTFAMKVLRGSFDKGDTEYEEIERPVAYRRVMRTWGDWVERNIDPLRTTVFFASMSPLHIKSLDWENPDGIKCALETTPILNMSMPFSVGTDYRLFSVAENVTHSLNVPVYFLNITKLSEYRKDAHTSVHTIRQGKMLTPEQQADPNTYADCIHWCLPGLPDTWNEFLYTRIISRS

2018-3-28

2018-7-1

29.

68

T0970

97/97

Others,
SGC, University of Oxford,
Brian Marsden

4mer, hard

Q6ZWB6

X-RAY

>Q6ZWB6
KRSGFLTLGYRGSYVARIMVCGRIALAKEVFGDTLNESRDEKYTSRFYLKFTYLEQAFDRLSEAGFHMVACNSSGTAAFYRDDKIWSSYTEYIFFRP

2018-4-10

2018-7-31

30.

56

T0971

186/186

Others,
Rice University,
Jonathan Clinger

natural product biosynthesis enzyme thought to be a polyporic acid scavenger.

server

nuclear transport factor 2

X-RAY

>TerC
MGSSHHHHHHSSGLVPRGSHMANTMASPNTPAPPNAAASPNPSDSPNPSDSPNPPASPNIEAILASYAGFRDRDIEGILSGMHPDVEWVHPEGMGKYGLGGTKLGHAGIKEFLAHVPTVLGGMRLAPREFIEQGDRVVVFGTREVTSLRGTTATLDFVHSWTMRDGKATRMEDIFDTVAFHELIES

2018-4-3

2018-7-24

31.

44

T0972

106/106

Others,
Pacific Northwest National Laboratory,
Garry Buchko

Effector protein.  No structure in this family appears in the PDB.

hard, multimer; messed up crystals, starting again 4/15

Q0P914_CAMJE

X-RAY

>tr|Q0P914|Q0P914_CAMJE Uncharacterized protein OS=Campylobacter jejuni subsp. jejuni serotype O:2 (strain ATCC 700819 / NCTC 11168) GN=Cj1242 PE=4 SV=1
MVVDNTQKTSNAIFSTTTKVKEKNTSADEFQATLNEVKNKEEKEDKKTNSSKFTNEDIDLGAVREDFRSYAWQKMREDQYKKNEETLLNKLFTTIDAGNATNNTKA

2018-3-20

2018-9-1

32.

50

T0973

146/146

Others,
Biomedical Research and Study Center,
Kaspars Tars

This is a project, aimed toward characterization of about 100 novel virus-like particles (VLPs) of ssRNA phages. VLPs of ssRNA phages can be used for various purposes, including creation of VLP-based vaccines. Various VLPs can be suited for presentation of various antigens.
VLPs of ssRNA phages are composed of 180 coat protein monomers. Two monomers build up a very stable dimer, so VLP can be regarded as built from 90 dimers. Monomers do not exist in a free state, so modelling a monomer structure makes no sense. Advice for modellers - please try to model a dimer structure, since 180-mer will be probably too difficult but monomer structure in free form simply does not exist _ hydrophobic core of the protein is in part composed of inter-monomer contacts in dimer.

easy, dimer, human, CAPRI

Bacteriophage ESE058 coat protein

X-RAY

>ESE058
PQAADIVIADAQATPVNHTFVPIGPDPKDATIYWWEDQSQASPAGYWRLSMQLVRPAPAKAGQNTNQRMIRVRVSTFEPILEVAVTATYSGIAPSPTVSYVPKAFTEFVLPERATLDNRKDIRKMHALALTTSEAIAMIESLQFVY

2018-3-22

2018-1-1

33.

47

H0974

169/167

Others,
University of Copenhagen,
Leila Lo Leggio

Repressor domain - antirepressor complex
part of lysogeny switch of TP901-1
SAXS data already obtained
It is a repressor-antirepressor complex. The repressor domain has been determined before on its own. The antirepresor has recognizable sequence homology to other structures, but not very high sequence identity. I should be most surprised if anyone could predict correctly the complex structure.....

heterodimer, easy, human

O48503/O48504

X-RAY

>MOR
MSYDYSSLLGKITEKCGTQYNFAIAMGLSERTVSLKLNDKVTWKDDEILKAVHVLELNPQDIPKYFFNAKVH
>NTD89
MQTDTSNRLKQIMAERNLKQVDILNLSIPFQKKFGIKLSKSTLSQYVNSVQSPDQNRIYLLAKTLGVSEAWLMGFDVPMVESSKIENDSHHHHHH

2018-3-21

2019-1-1

34.

62

T0975

343/343

Others,
UT MD Anderson Cancer Center,
Chi-Lin Tsai

EXO5 is a DNA exonuclease that is critical for DNA repair pathway. Depletion of EXO5 causes chromosomal abnormality. EXO5 contains _4Fe-4S_ cluster in the structure to maintain its activity. The role of _4Fe-4S_ cluster is under investigation.

human

EXO5

X-RAY

>EXO5
LEDAQESKALVNMPGPSSESLGKDDKPISLQNWKRGLDILSPMERFHLKYLYVTDLATQNWCELQTAYGKELPGFLAPEKAAVLDTGASIHLARELELHDLVTVPVTTKEDAWAIKFLNILLLIPTLQSEGHIREFPVFGEGEGVLLVGVIDELHYTAKGELELAELKTRRRPMLPLEAQKKKDCFQVSLYKYIFDAMVQGKVTPASLIHHTKLCLEKPLGPSVLRHAQQGGFSVKSLGDLMELVFLSLTLSDLPVIDILKIEYIHQETATVLGTEIVAFKEKEVRAKVQHYMAYWMGHREPQGVDVEEAWKCRTCTYADICEWRKGSGVLSSTLAPQVKKAK

2018-4-9

2019-1-1

35.

43

T0976

252/252

Others,
Argonne National Laboratory,
Kemin Tan

a target of CSGID

easy, dimer, human

Rhodanese-like family protein

X-RAY

>CAG45760.1 Rhodanese-like family protein [Francisella tularensis subsp. tularensis SCHU S4]
MKIMQHSSGFLKLVDDAKSRIQECSVDDIQKMNETQTLDGLLIDTREESEVANGYIPNAIHLSKGIIESAIESAVPNKNQKMYFYCGGGFRSALVADKLREMGYKNVISVDGGWRAWNAKGYPTVSPNQFRPNEFLKLVNNAKTQIKECSTTELYNKINSQELDGIVFDVREDSEFNRFHIQGATHLSKGQIEVKIENLVPNKQQKIYLYCGSGFRSALAAESLQHMGYTNVVSIAGGIKDWLANNYPVSQN

2018-3-20

2019-1-1

36.

36

T0977

566/566

Others,
Centro Nacional de Biotecnologia, Consejo Superior de Investigaciones Cientificas (CNB-CSIC),
Mark van Raaij

unnamed protein product, host recognition protein, NCBI reference number YP_004957431.1
Orf16 is the proposed host recognition protein of phage S24-1, although the binding site of the ligand and the identity of the ligand are not known. By solving the structure we hoped to reveal more about the biological activity.

easy - 3mer, human

YP_004957431.1

X-RAY

>orf16_566
MNHKVHHHHHHMELGTIDKIIHDEFTKYSAGLTSAFALFKVAEMKQMNDFKAEVKDLIKDIDRFVNGFELNELEPKFVTGFGGVRNAVNQSILIDRETNQMYSTQSDSQNPEGFWINKLTPSGDLISSMRIVEGGHGTNIALERKSNGEIKIWLYHVALSKLVQIAYRDNTTLTVDDAKALTDFTPTSSHEYFTPIMDEENDKLVFRYGGGLIQVRSREDVINHIDNVEKELQIDVKENTPDRPMQGIAVYGDDLYWLSGRSALDSKTLIQKYSFKTKSKVYDYYLNDVSFEHGVENPRDNFREPEGIYLYVNPRTKKQSLLIAYTTAGGGKRQNLLYGFFQTGEYERFVALTLKGGQNYKLTKDDGRALSIRDGVTSLSQITETGFYYMMTEHTKVMDDFPYINNDAGWFLFVSPKTQQLGGYQELTRNSGLRKMMKLIRSFTYNLNTQKFEFGKWSVIDTNSTEKEYVEAKNFGYWIAKITLPGEYYITSTQMNQFKDKPKGIGDAGAWLQVSSGNVSGEVRQTLLINSSTYKEFYSLVTVKNTHREYDWVAKHQKKLVDLQSR

2018-2-28

2021-12-31

37.

75

T0978

416/416

Others,
San Diego State University,
Manal Swairjo

DpdA is annotated in the genomic databases as a tRNA guanine transglycosylase. However, its true function was determined to be the insertion of preQ0, a stable precursor to the modified nucleoside queuosine in DNA of bacteria and phage. Queuosine is a 7-deazaguanosine modification of the wobble position of tRNAs and has been studied extensively by us and other groups. Its recent discovery in the DNA of bacteria and phage is novel, and opens the field of DNA modification to studies beyond the known methylation of DNA, and highlights the cross-talk between RNA and DNA metabolism. Preliminary results show that queuosine modification of DNA by DpdA confers resistance against foreign endonucleoases, implying an ancient role in restriction-modification and defense against foreign DNA.

easy, serv or hum

DpdA, WP_001542917.1

X-RAY

>Salmonella montevideo DpdA
MSKLKYFFPDSQDFIDPSFDFVRETRNEHRVRQRDDHYPHEVFPHPYDGMLVSKAVVDGLGGGESKYTRAQRLRYFRNGMKHFFRLPDNMQTMGDCGAFTYVNQDVPPYRVEEVIEFYETSRFNYGVSLDHIIFGYEKPGESFSGEVLAECRRRQDITLTLAQDFLVKSQKSCFTPFGVAHGWNKKSYRQSVEALLAMGYKNITMGGMVPLKTAQILETLEEIKPLLKSDTQVHLLGIARPESFADFIRLGVTSIDSTTPLQQAFKDRKNNYHTPEGRAYTAVRVPQFDANPSLSRKIKSGVIDQDVARHLEKDAMHALFEYDNNALSLEKTLEAVLAYERLHSGEKEAEKIRADYERTLGDRPWRKCECNICRSIGINVIIFRGAERNRRRGFHNIQVLYNRLQYTLSLRSEDKS

2018-4-15

2019-12-1

38.

85

T0979

98/98

Others,
Max Planck Institute for Developmental Biology,
Hartmann Marcus

We predicted the sequence to form a yet unobserved fiber structure. It was fused N- and C-terminally to GCN4 adaptors for stabilization.

It is a homo trimeric fiber. This is the sequence of the construct:

GGGSG-MKQLEDKVEELLSKVYHLENEVARLKKL-FAETATKAETATKAETATKKDIAGMATKHDIAQLDKR-MKQLEWKVEELLSKVYHLENEVARLKKL

The part of interest is the sequence FAETATKAETATKAETATKKDIAGMATKHDIAQLDKR in the middle. It is from a hypothetical protein from an uncharacterized Parcubacterium:

_ KKW34673.1 hypothetical protein UY81_C0065G0003 _Candidatus Giovannonibacteria bacterium GW2011_GWA2_53_7_
MKKPITLEKLVSMVAVGFAETATKAETATKAETATKKDIAGMATKHDIAQLDKRIDGLDKKIADLVDRIGRVESKLDRALNKEVAAWKVSSAS

We have no idea what it does, but we thought it should form a trimeric fiber of a type that we call a alpha_beta coiled coil. We previously characterized alpha_beta coiled coils with a sequence repeat length of 9 residues (http:__dx.doi.org_10.7554_eLife.11861.001 or PDB:5APZ).
Now this one has repeats of 6 residues, such that it is almost a clean beta-only coiled coil without real alpha content.

I could anticipate that manual predictors could have a good chance of cracking it, while automated servers should rather fail.

The structure I appended has the sequence of interest fused to stabilizing GCN4 leucine zipper domains. The quality of the crystallographic model is not fully satisfactory yet, including parts of the backbone geometry in the region of interest. However, we are actively working on the structure solution and refinement of other crystal forms at higher resolution, so we probably could provide a better model soon.

3mer, human

A0A0G1XU35_9BACT

X-RAY

>A0A0G1XU35_9BACT-fragment-between-GCN4-adaptors
GGGSGMKQLEDKVEELLSKVYHLENEVARLKKLFAETATKAETATKAETATKKDIAGMATKHDIAQLDKRMKQLEWKVEELLSKVYHLENEVARLKKL

2018-4-24

2019-1-1

39.

81

H0980

163/163

Others,
,

This complex tethers the telomeric ends of meiotic chromosomes to the inner nuclear membrane to facilitate the rapid chromosomal movement in meiotic prophase I that facilitates the identification of homologous chromosome pairs through recombination. The importance of the structure lies in determining the architecture of the wider complex that is built around this 2:2 complex, and its orientation with respect to the nuclear membrane (inferred from transmembrane helices downstream in Majin).

The structure was solved by SAD phasing of a selenomethionine derivative. We can also provide SAXS and MALS data from which we had predicted the overall shape of the complex. Please note that the structure included has not yet been fully refined although the build is complete.

2:2 heterodimer, hard, human, have SAXS data

Q3KP22-3; Q8NHR7

X-RAY

>Majin:A
SLKPFTYPFPETRFLHAGPNVYKFKIRYGKSIRGEEIENKEVITQELEDSVRVVLGNLDNLQPFATEHFIVFPYKSKWERVSHLKFKHGEIILIPYPFVFTLYVEMKWFHE
>Terb2:B
VNNMVTGYISIDAMKKFLGELHDFIPGTSGYLAYHVQNEINMSAIKNKLKRK

2018-4-20

2018-9-1

40.

39

T0981

640/640

Others,
Centro Nacional de Biotecnologia, Consejo Superior de Investigaciones Cientificas (CNB-CSIC),
Mark van Raaij

Baseplate protein of bacteriophage K, possibly involved in recognition of its Staphylococcus host. Fold unknown. The structure should also allow localization in the known EM map of the phage baseplate. REFSEQ NC_005880.2

hard, 3mer, human

gp146

X-RAY

>gp146, YP_009041342
MAFNYTPLTETQKLKDMYPKVNDIGNFLKTEVNLSDVKQISQPDFNNILASIPDSGNYYVTNSKGAPSGEATAGFVRLDKRNVNYYKIYYSPYSSNKMYIKTYANGTVYDWISFKLDEGSLYNEGNTLNVKELTESTTQYATLVNPPKENLNTGWVNYKESKNGVSSLVEFNPVNSTSTFKMIRKLPVQEQKPNLLKDSLFVYPETSYSNIKTDNWDTPPFWGYSSNSGRSGVRFRGENTVQIDDGSDTYPSVVSNRFKMGKELSVGDTVTVSVYAKINDPALLKDNLVYFELAGYDTVDDTSKNPYTGGRREITASEITTEWKKYSFTFTIPENTIGASGVKVNYVSLLLRMNCSSSKGNGAVVYYALPKLEKSSKVTPFITHENDVRKYDEIWSNWQEVISKDELKGHSPVDIEYNDYFKYQWWKSEVNEKSLKDLAMTVPQGYHTFYCQGSIAGTPKGRSIRGTIQVDYDKGDPYRANKFVKLLFTDTEGIPYTLYYGGYNQGWKPLKQSETSTLLWKGTLDFGSTEAVNLNDSLDNYDLIEVTYWTRSAGHFSTKRLDIKNTSNLLYIRDFNISNDSTGSSVDFFEGYCTFPTRTSVQPGMVKSITLDGSTNTTKVASWNEKERIKVYNIMGINRG

2018-3-1

2021-12-31

41.

95

T0982

283/283

Others,
Rice University,
Sarah Alvarado

server

DynU16

X-RAY

>DynU16
MPDGYLKLPDDWVRVMVSVPAPVDEVWEAVTDPRRVAQWFGHLSAPMTTGASTRVDFGDGDFFDIEVDHVEPRDRLLFRWSFLGVGPECQVGWTLTGGAEATTLTVDDSCPGRPGSEVAQLKAGWLDFVGRLARYLETGKPSRYDWRQEIDGSVVLPNGSWHPLREETVVDWLPIATNGAGPGWFFVVDEEGPRRFTLRDWQLDRERALTFAVEIPGARTVTACQVRTEPGERGRTLSVSHQGWHRLGLSDLQERTLRHRFAATWTAALSLAEECARTRQELP

2018-5-8

2019-9-19

42.

96

T0983

245/245

Others,
Rice University,
Sarah Alvarado

very easy, dimer, still server?

Cals10

X-RAY

>Cals10
MFGPEHAEVYEAAYRGRGKSWHDEAADVADRIRAARPDAARLLDVGCGTGAHLETFATRFPHVEGLELAPAMLALARHRLPGVRLHAGDMRTFDLGVTFDAVTCLFTAVNFLGTVAEMRAAVAAMSAHLAPGGVLVLEPWWFPERFIDGYVGGDLVREEGRTVARVSRSTRQGRVTRMEERWLVGDAAGIREFSQVGLLTMFTREEYDAAFAAAGCESAYVEGWLTGRGLFVATRTGGHATPTMV

2018-5-8

2019-9-28

43.

82

T0984

752/752

Others,
UT Southwestern Medical Center,
Xiaochen Bai

easy, 2mer

Q8NHX9

EM

>sp|Q8NHX9|TPC2_HUMAN Two pore calcium channel protein 2 OS=Homo sapiens OX=9606 GN=TPCN2 PE=1 SV=2
MAEPQAESEPLLGGARGGGGDWPAGLTTYRSIQVGPGAAARWDLCIDQAVVFIEDAIQYRSINHRVDASSMWLYRRYYSNVCQRTLSFTIFLILFLAFIETPSSLTSTADVRYRAAPWEPPCGLTESVEVLCLLVFAADLSVKGYLFGWAHFQKNLWLLGYLVVLVVSLVDWTVSLSLVCHEPLRIRRLLRPFFLLQNSSMMKKTLKCIRWSLPEMASVGLLLAIHLCLFTMFGMLLFAGGKQDDGQDRERLTYFQNLPESLTSLLVLLTTANNPDVMIPAYSKNRAYAIFFIVFTVIGSLFLMNLLTAIIYSQFRGYLMKSLQTSLFRRRLGTRAAFEVLSSMVGEGGAFPQAVGVKPQNLLQVLQKVQLDSSHKQAMMEKVRSYGSVLLSAEEFQKLFNELDRSVVKEHPPRPEYQSPFLQSAQFLFGHYYFDYLGNLIALANLVSICVFLVLDADVLPAERDDFILGILNCVFIVYYLLEMLLKVFALGLRGYLSYPSNVFDGLLTVVLLVLEISTLAVYRLPHPGWRPEMVGLLSLWDMTRMLNMLIVFRFLRIIPSMKLMAVVASTVLGLVQNMRAFGGILVVVYYVFAIIGINLFRGVIVALPGNSSLAPANGSAPCGSFEQLEYWANNFDDFAAALVTLWNLMVVNNWQVFLDAYRRYSGPWSKIYFVLWWLVSSVIWVNLFLALILENFLHKWDPRSHLQPLAGTPEATYQMTVELLFRDILEEPGEDELTERLSQHPHLWLCR

2018-4-22

2019-1-1

44.

101

T0985

863/863

Others,
Lawrence Berkeley National Laboratory,
Susan Tsutakawa

from Henrique. Purpose: Determine the function
It is a glycosyl phosphorylase

ACL_1061

X-RAY

>ABX81671.1 hypothetical protein ACL_1061 [Acholeplasma laidlawii PG-8A]
MAHHHHHHVGTGSNDDDDKSPMKLKQDVISIYQKISLFESGQLNITKLASGAYYLDDELTLITDPVNSGARFPYAVNGMTIWAYASGYISINHSSYYILPPNLEGKEPFLDFFGIEQDGNNTYPVSLLGVSERNDEIENKRYTVFSKNIAYYITVTKNFLYAVTVYISKDFKIYFNTVAHNLTGETKQITLSSFFNMLFKYDSGESIETKWFKKVSYENNMFIYDAPEDIDRHTRIENYGVVKRHLHTKPKNIQNTTSRIDYVGKRYRSVRNALSIRSLKFEKAPLVTNFTDTAINADLINYEVKAYDTIISSYRIETCHDKDTLNKMMASDLTDKEIKKVYEGLSNTQSYDFDNFGISFKGVNDNRVDDKVLNQFLKLVNYQIHFSSLSSNSGTVFLGVRDVMQQLESSLIWDRKNVRSKILEVLSFIDPSGLPPRQYALPPKEGNPRMDLRPFIDQGLWIISTLHTYLAYTEDYDILNEVCGYYERIEPNSAKKSKVENSVLEHLIRVTNYLVSNIDPSTYGLKALYGDWNDALDGLGLIEGSSGYGNGVSVMATLQLYENLERMIEILKLVDPQNEHINTYEVVRHNLSLGINKYAVVIKQDEKRVLHGWGHDRSYFVGSFNDPDGHSRNSLTSNAFYIISDMIKNTPEMKPHLLHAFHNLDSKYGLKTFDPAMQDFHGFGRIINLPPGTAENAATYVHATLFGVLALYMLGEGDFANEQVLKVLPITKKEMSTSPFIMPNSYVHNEELNMDGESMSDWYTGSANTLLKTLIRGLFGLEVKFDHLRLRPSKAFFSKEATLMVSIGNKLTRIVYKNNNNGNRTFKLNGKVIEAKLDTLSGLLYIDINKSILEHQNVIHIQD

2018-6-1

2020-1-1

45.

90

H0986

251/251

Others,
Northwestern University, Feinberg School of Medicine,
George Minasov

CdiA is a large previously uncharacterized protein of Pseudomonas aeruginosa recently shown to impact virulence in mice and with an interesting structure suggesting intragenic reassortment and a toxic C-terminal tip. This immunity protein inhibits a specific C-terminal tip of FhlB and prevents this C-terminal tip from killing the bacterium.

C-Terminal Tip of CdiA (Uniprot A0A157WHH8)  
Immune Protein (UniProt A0A0H2ZK44)

toxin/immune prot complex, human

Toxic C-Terminal Tip of CdiA and Immune Protein

X-RAY

>Toxin
IKTVLDTAQAPYKGSTVIGHALSKHAGRHPEIWGKVKGSMSGWNEQAMKHFKEIVRAPGEFRPTMNEKGITFLEKRLIDGRGVRLNLDGTFKGFID
>Immune protein
MKELFEVIFEGVNTSRLFFLLKEIESKSDRIFDFNFSEDFFSSNVNVFSELLIDSFLGFNGDLYFGVSMEGFSVKDGLKLPVVLLRVLKYEGGVDVGLCFYMNDFNSAGKVMLEFQKYMNGISADFGFENFYGGLEPASDQETRFFTNNRLGPLL

2018-4-27

2018-10-1

46.

102

T0987

405/405

Others,
UC San Diego,
Lindsey Spiegelman

Esp is thought to contribute to biofilm formation and host colonization by E. faecalis, but the mechanism is not known. There is almost no sequence homology to any proteins of characterized structure, and structural prediction servers are unable to render models for Esp405. Thus, we sought to crystallize this N-terminal fragment and use the structure to guide functional experiments.

Enterococcal surface protein

X-RAY

>Esp
NAQMGEGRLANYSASGNTFQENPGYTKNYNFSDLQFNPKAITGDVLQGNTIDFEVYGKHNIAASTANWEIRLQLDERLAQYVEKIQVDPKKGVGNSRRTFVRINDSLGRPTNIWKVNYIRANDGLFAGAETTDTQTAPNGVITFEKNLDEIFKEIGADNLKSDRLMYRIYLVSHQDDDKIVPGIESTGYFLTDQDDFYNKLDVSENNSDQFKHGSVNTKYEEANIQTKDGSGSTGANGAIILDHKLTKEKNFSYSTSAKGTPWYANYKIDERLVPYVSGIQMHMVQADKVAYNVAFESGKKVADLAIERREGHENYGMGSITDNDLTKLIDFANASPRPIVVRYVLQLTKPLDEILEEMKAADKIEENAPFGEDFIFDSWLSDTNKKLIQNTYGTGYYYLQDIDG

2018-6-5

2019-1-1

47.

37

T0988

204/204

Others,
Centro Nacional de Biotecnologia, Consejo Superior de Investigaciones Cientificas (CNB-CSIC),
Mark van Raaij

The protein domain is the putative host recognition domain of the virus. Only for one other aviadenovirus is the structure known, but with low sequence homology to this domain. We therefore undertook structure solution to see how similar the fold might be.

easy, 3mer, human

YP_006383572

X-RAY

>GoAdV-238_48.1_NCC_2trimer:A
LQNYVFTSGNGIGGNGFTARVMAKVGTSYITFPCAYDAKLISFNGTVQGNITIKVRSRDISGIPLDQQTTNPTFTFWLCRDTTNSSLKNFSNCSNNQFTPNKTTVISKTNPNGLNAWVTSTDQNWYLGNTSGDTIYGVPNGDGKLSGTYLYSVVFSVVQFYGTSMPRLAFTVNLTPTGANSNHLYVPDNNAAVTIGPVKFWYLI

2018-2-28

2021-12-31

48.

40

T0989

246/246

Others,
Centro Nacional de Biotecnologia, Consejo Superior de Investigaciones Cientificas (CNB-CSIC),
Mark van Raaij

Part of the bacteriophage T1 lateral tail fibre.
Part of the N-terminal and C-terminal sequences are missing from the crystallized, proteolyzed protein.
Note that this is not the dodecameric head-tail connector as wrongly annotated in UNIPROT, but a strongly homo-trimeric protein.

hard, 3mer, human

Q6XQB2.1

X-RAY

>T1orf26-332-577
ALGVNFGGTGGTTEEQARTSLKVYKLDRTNLGEKHLDSITGEGDGPGIYMQSSSALATASRGYPEATAGMLEVLPNGANGASACIQRFTPFTYLGTAPESGNSQNEYARAGRGTFYIRMKNGNNAKFSPWIPFQASSSGNVVSSPASNEKSSWVDYVNALSSQPSSLASYNVNSVGWVTAISVRHRNGQGDGSAFGFVIEDASMTSPHYKDVRLRKQTGAGQWQSTQVIWNTGNTTVDSNGFIKRA

2018-3-1

2021-12-31

49.

99

T0990

552/552

Others,
UCLA,
Mason Lai

Determine the biological function of NS1 in Bluetongue Virus, and potentially any insights to its mechanism.

very difficult

NS1

EM

>NS1
MERFLRKYNISGDYANATRTFLAISPQWTCSHLKRNCLFNGMCAKQNFERAMIAATDAEEPAKAYRLVELAKEAMYDRETVWLQCFKSFSQPYEEDIEGKMKRCGAQLLEDYRKNGMMDEAVKQSALVNSERVRLDDSLSAMPYIYVPIKEGQIVNPTFISRYRQIAYYFYSPNLADDWIDPNLFGIRGQHNQIKREIERQVNTCPYTGYKGRVLQVMFLPIQLINFLRMDDFAKHFNRYASMAIQQYLRVGYAEEVRYVQQLFGKIPTGEFPLHHMMLMRRDFPTRDRSIVEARVRRSGDENWQSWLLPMIIVREGLDHQDRWEWLIDYMDRKHTCQLCYLKHSKQIPTCGVIDVRASELTGCSPFKTVKIEEHVGNNSVFETKLVRDEQIGRIGDHYYTTNCYTGAEALITTAIHIHRWIRGCGIWNDEGWREGIFMLGRVLLRWELTKAQRSALLRLFCFVCYGYAPRADGTIPDWNNLGSFLDTILKGPELSEDEDERAYATMFEMVRCIITLCYAEKVHFAGFAAPACESGEVINLAARMSQMRMEY

2018-5-22

2018-12-1

50.

48

T0991

118/118

Others,
Biomedical Research and Study Center,
Kaspars Tars

This is a project, aimed toward characterization of about 100 novel virus-like particles (VLPs) of ssRNA phages. VLPs of ssRNA phages can be used for various purposes, including creation of VLP-based vaccines. Various VLPs can be suited for presentation of various antigens.
VLPs of ssRNA phages are composed of 180 coat protein monomers. Two monomers build up a very stable dimer, so VLP can be regarded as built from 90 dimers. Monomers do not exist in a free state, so modelling a monomer structure makes no sense. Advice for modellers - please try to model a dimer structure, since 180-mer will be probably too difficult but monomer structure in free form simply does not exist _ hydrophobic core of the protein is in part composed of inter-monomer contacts in dimer.

hard, dimer, human

Bacteriophage ESE001 coat protein

X-RAY

>ESE001 
AYKLIKMAGGNSAIQTYAREDKTTQTLSTQKTISVLRNGSTSTRIIKVHINSTAPVTINTCDPTKCGPTVPMGVSFKSSMPEDADPAEVLKAAKAALALFEANLNSAFNKNVDEISVA

2018-3-22

2018-12-1

51.

63

T0992

126/126

Others,
University of Birmingham,
Andrew Lovering

present in a heavy metal efflux operon

human

Q6MKZ7

X-RAY

>Q6MKZ7
HGEDKPGPHGGHIQMPGAFHTEITVDKDQSVHVYLLDMNFANPTIKDSSVAVTAKNKKSEIKYTCSVMGNDHYHCIPNGKVPAKTNLIVQATREKAVGNEAVYKLPLPAFKESKKESKKEDHSHHH

2018-4-10

2019-1-1

52.

98

H0993

378/378

Others,
UCSF,
Damian Ekiert

Implicated in lipid transport for the bacterial outer membrane

MlaFA

X-RAY

>MlaF:A
MEQSVANLVDMRDVSFTRGNRCIFDNISLTVPRGKITAIMGPSGIGKTTLLRLIGGQIAPDHGEILFDGENIPAMSRSRLYTVRKRMSMLFQSGALFTDMNVFDNVAYPLREHTQLPAPLLHSTVMMKLEAVGLRGAAKLMPSELSGGMARRAALARAIALEPDLIMFDEPFVGQDPITMGVLVKLISELNSALGVTCVVVSHDVPEVLSIADHAWILADKKIVAHGSAQALQANPDPRVRQFLDGIADGPVPFRYPAGDYHADLLPGS
>MlaB:B
MHHHHHHENLYFQSESLSWMQTGDTLALSGELDQDVLLPLWEMREEAVKGITCIDLSRVSRVDTGGLALLLHLIDLAKKQGNNVTLQGVNDKVYTLAKLYNLPADVLPR

2018-5-10

2018-11-1

53.

61

T0994

585/585

Others,
EPFL,
Luciano Abriata

Controls beta-lactam resistance genes in Methicillin-resistant Staphylococcus aureus.

Human, No structure:

A protein with two domains, one transmembrane with a complex helical TM topology and -apparently- a hydrophilic cavity, and one soluble domain. The soluble domain has been crystallized almost entirely, while for the other domain there is some homology to proteins from the PDB. Importantly, there is also NMR data on how part of one subunit interacts with the other. Finally, we have a lot of experimental data mapping the topology of the transmembrane domain.

Q79ER8_STAAU

X-RAY

>Mecr1_Q79ER8_STAAU
MLSSFLMLSIISSLLTICVIFLVRMLYIKYTQNIMSHKIWLLVLVSTLIPLIPFYKISNFTFSKDMMNRNVSDTTSSVSHMLDGQQSSVTKDLAINVNQFETSNITYMILLIWVFGSLLCLFYMIKAFRQIDVIKSSSLESSYLNERLKVCQSKMQFYKKHITISYSSNIDNPMVFGLVKSQIVLPTVVVETMNDKEIEYIILHELSHVKSHDLIFNQLYVVFKMIFWFNPALYISKTMMDNDCEKVCDRNVLKILNRHEHIRYGESILKCSILKSQHINNVAAQYLLGFNSNIKERVKYIALYDSMPKPNRNKRIVAYIVCSISLLIQAPLLSAHVQQDKYETNVSYKKLNQLAPYFKGFDGSFVLYNEREQAYSIYNEPESKQRYSPNSTYKIYLALMAFDQNLLSLNHTEQQWDKHQYPFKEWNQDQNLNSSMKYSVNWYYENLNKHLRQDEVKSYLDLIEYGNEEISGNENYWNESSLKISAIEQVNLLKNMKQHNMHFDNKAIEKVENSMTLKQKDTYKYVGKTGTGIVNHKEANGWFVGYVETKDNTYYFATHLKGEDNANGEKAQQISERILKEMELI

2018-4-7

2021-1-1

54.

83

T0995

330/330

Others,
University of Cape Town,
Bryan Trevor Sewell

Insight into substrate specificity and thermostability

easy, 9-mer

UniProtKB - B3GNT7 (B3GNT7_BACPU)

EM

>gi|25992005|gb|AAN77004.1| cyanide dihydratase [Bacillus pumilus]
MTSIYPKFRAAAVQAAPIYLNLEASVEKSCELIDEAASNGAKLVAFPEAFLPGYPWFAFIGHPEYTRKFYHELYKNAVEIPSLAIQKISEAAKRNETYVCISCSEKDGGSLYLAQLWFNPNGDLIGKHRKMRASVAERLIWGDGSGSMMPVFQTEIGNLGGLMCWEHQVPLDLMAMNAQNEQVHVASWPGYFDDEISSRYYAIATQTFVLMTSSIYTEEMKEMICLTQEQRDYFETFKSGHTCIYGPDGEPISDMVPAETEGIAYAEIDVERVIDYKYYIDPAGHYSNQSLSMNFNQQPTPVVKHLNHQKNEVFTYEDIQYQHGILEEKV

2018-4-23

2019-1-1

55.

97

T0996

848/848

Others,
UCSF,
Damian Ekiert

Suspected role in bacterial outer membrane lipid transport based on homology to better characterized proteins with same domains.

YebT

EM

>YebT:A
MHHHHHHENLYFQQDRGNTVTIDFMSADGIVPGRTPVRYQGVEVGTVQDISLSDDLRKIEVKVSIKSDMKDALREETQFWLVTPKASLAGVSGLDALVGGNYIGMMPGKGKEQDHFVALDTQPKYRLDNGDLMIHLQAPDLGSLNSGSLVYFRKIPVGKVYDYAINPNKQGVVIDVLIERRFTDLVKKGSRFWNVSGVDANVSISGAKVKLESLAALVNGAIAFDSPEESKPAEAEDTFGLYEDLAHSQRGVIIKLELPSGAGLTADSTPLMYQGLEVGQLTKLDLNPGGKVTGEMTVDPSVVTLLRENTRIELRNPKLSLSDANLSALLTGKTFELVPGDGEPRKEFVVVPGEKALLHEPDVLTLTLTAPESYGIDAGQPLILHGVQVGQVIDRKLTSKGVTFTVAIEPQHRELVKGDSKFVVNSRVDVKVGLDGVEFLGASASEWINGGIRILPGDKGEMKASYPLYANLEKALENSLSDLPTTTVSLSAETLPDVQAGSVVLYRKFEVGEVITVRPRANAFDIDLHIKPEYRNLLTSNSVFWAEGGAKVQLNGSGLTVQASPLSRALKGAISFDNLSGASASQRKGDKRILYASETAARAVGGQITLHAFDAGKLAVGMPIRYLGIDIGQIQTLDLITARNEVQAKAVLYPEYVQTFARGGTRFSVVTPQISAAGVEHLDTILQPYINVEPGRGNPRRDFELQEATITDSRYLDGLSIIVEAPEAGSLGIGTPVLFRGLEVGTVTGMTLGTLSDRVMIAMRISKRYQHLVRNNSVFWLASGYSLDFGLTGGVVKTGTFNQFIRGGIAFATPPGTPLAPKAQEGKHFLLQESEPKEWREWGTALPK

2018-5-10

2018-11-1

56.

64

T0997

228/228

Others,
University of Birmingham,
Andrew Lovering

LD-transpeptidase; modifying cell wall during predation

human

Q6MN59

X-RAY

>Q6MN59
AGQDYSSAEVLPDDTEMEQTIPETNTADKTTAEETEPAALEDTTTLMESAAVLKNYDHLDPKRMINSKALAEAVLYFDKNQSRIKNKKYMSLIDFGKRSTQARFFIINMSTGEVTAIHTAHGKGSDANHDGYAEKFSNNSGSNASSLGYYLAAETYYGKHGLSLKLDGLSSTNSKARARAVVIHGASYVKESSVIQGRSWGCPAVANHLRDKVIGMLKGGSLIYAFAK

2018-4-10

2019-1-1

57.

49

T0998

166/166

Others,
Biomedical Research and Study Center,
Kaspars Tars

This is a project, aimed toward characterization of about 100 novel virus-like particles (VLPs) of ssRNA phages. VLPs of ssRNA phages can be used for various purposes, including creation of VLP-based vaccines. Various VLPs can be suited for presentation of various antigens.
VLPs of ssRNA phages are composed of 180 coat protein monomers. Two monomers build up a very stable dimer, so VLP can be regarded as built from 90 dimers. Monomers do not exist in a free state, so modelling a monomer structure makes no sense. Advice for modellers - please try to model a dimer structure, since 180-mer will be probably too difficult but monomer structure in free form simply does not exist _ hydrophobic core of the protein is in part composed of inter-monomer contacts in dimer.

hard, dimer, human

Bacteripohage AVE016 coat protein

X-RAY

>AVE016
SYTQSFGYTIPTEKDTLEIPQYQALLAKKASYMDDSQGKNTATYMNTAAPKDQPETITFGVNKVDNVYKQSNVQNQTFYASSSKGTKIRIDGKRIWRTQSTDVNTGLPVIVDCPLWTSFTLGFADFTLVDDSARKSTIEWMISQLELLKDDGVWSKLCSGVTRIYG

2018-3-22

2018-12-1

58.

104

T0999

3178/1589

Others,
Max Planck Institute for Developmental Biology,
Hartmann Marcus

This target, the pentafunctional AROM polypeptide, contains the 5 central enzymes of the shikimate pathway fused in one chain. AROM is exclusively found in fungi and protists, while essentially all other organisms with a shikimate pathway have mono-functional enzymes. The basic question is how, why, and to which benefit are the five enzymatic domains arranged in this pentafunctional entity in fungi and protists.

G0S061_CHATD

X-RAY

>G0S061_CHATD
MATANVAGAGGSGSEPTRIAILGKEDIIVDHGIWLNFVAHDLLQTLPSSTYVLITDTNLY
TTYVPPFQAVFEAAAPRDVRLLTYAIPPGEYSKSRETKAEIEDWMLSHACTRDTVIIALG
GGVIGDMIGYVAATFMRGVRFVQVPTTLLAMVDSSIGGKTAIDTPMGKNLIGAFWQPRRI
YIDLAFLETLPVREFINGMAEVIKTAAIWNETEFTALEENAAAILEAVRSKASSPAARLA
PIRHILKRIVLGSARVKAEVVSADEREGGLRNLLNFGHSIGHAYEAILAPQVLHGECVAI
GMVKEAELARYLGVLRPSAVARLTKLIASYDLPTSVHDKRIAKLSAGKECPVDVLLQKMA
VDKKNEGRKKKIVLLSAIGKTYEKKATVVDDRAIRLVLSPSVRVTPGVPKGLSVTVTPPG
SKSISNRALVLAALGEGTTRIHGLLHSDDVQYMLAAIEQLHGADFSWEDAGEILVVTGKG
GKLQASKEPLYLGNAGTASRFLTSVVALCAPSAVSSTVLTGNARMKVRPIGALVDALRAN
GVGVKYLEKEKSLPVEVDAAGGFAGGVIELAATVSSQYVSSILMAAPYAHQPVTLRLVGG
KPISQPYIDMTIAMMASFGIKVERSAEDPNTYLIPKGVYKNPPEYVVESDASSATYPLAV
AAITGTTCTIPNIGSESLQGDARFAVEVLRPMGCAVEQTATSTTVTGPPIGTLKAIPHVD
MEPMTDAFLTAAVLAAVADGTTQITGIANQRVKECNRIAAMKDQLAKFGVQCNELEDGIE
VIGKPYQELRNPVEGIYCYDDHRVAMSHSVLSTISPHPVLILERECTAKTWPGWWDILSQ
FFKVQLDGEEDPTKRTTQSTQQVRKGTDRSIFIVGMRGAGKSTAGRWMSELLKRPLVDLD
AELERREGMTIPEIIRGERGWEGFRQAELELLQDVIKNQSKGYIFSCGGGIVETEAARKL
LIDYHKNGGPVLLVHRDTDQVVEYLMRDKTRPAYSENIREVYERRKPWFYECSNLQYHSP
HEDGSEALLQPPADFARFVKLIAGQSTHLEDVRAKKHSFFVSLTVPNVADALDIIPRVVV
GSDAVELRVDLLESYEPEFVARQVALLRAAAQVPIVYTVRTQSQGGKFPDEDYDLALRLY
QTGLRSGVEYLDLEMTMPDHILQAVTDAKGFTSIIASHHDPQCKLSWKSGSWIPFYNKAL
QYGDVIKLVGVAREMADNFALTNFKAKMLAAHDNKPMIALNMGTAGKLSRVLNGFLTPVS
HPALPSKAAPGQLSATEIRQALSLIGEIEPKSFYLFGKPISASRSPALHNTLFYKTGLPH
HYSRFETDEASKALESLIRSPDFGGASVTIPLKLDIMPLLDSATDAARTIGAVNTIIPQT
RDGSTTTLVGDNTDWRGMVHALLHSSGSGSVVQRTAAPRGAAMVVGSGGTARAAIYALHD
LGFAPIWIVARSEERVAELVRGFDGYDLRRMTSPHQGKDNMPSVVISTIPATQPIDPSMR
EVIVEVLKHGHPSAEGKVLLEMAYQPPRTPLMTLAEDQGWRTVGGLEVLAAQGWYQFQLW
TGITPLYEEARAAVMGEDSVELEHHHHHH

2018-6-13

2019-1-1

59.

89

T1000

523/523

Others,
Northwestern University, Feinberg School of Medicine,
George Minasov

This protein was selected based on the results of Adaptive Laboratory Evolution experiments. It is involved in Antibiotic Resistance.

dimer, human

D-galactarate dehydrogenase

X-RAY

>P39829
MANIEIRQETPTAFYIKVHDTDNVAIIVNDNGLKAGTRFPDGLELIEHIPQGHKVALLDIPANGEIIRYGEVIGYAVRAIPRGSWIDESMVVLPEAPPLHTLPLATKVPEPLPPLEGYTFEGYRNADGSVGTKNLLGITTSVHCVAGVVDYVVKIIERDLLPKYPNVDGVVGLNHLYGCGVAINAPAAVVPIRTIHNISLNPNFGGEVMVIGLGCEKLQPERLLTGTDDVQAIPVESASIVSLQDEKHVGFQSMVEDILQIAERHLQKLNQRQRETCPASELVVGMQCGGSDAFSGVTANPAVGYASDLLVRCGATVMFSEVTEVRDAIHLLTPRAVNEEVGKRLLEEMEWYDNYLNMGKTDRSANPSPGNKKGGLANVVEKALGSIAKSGKSAIVEVLSPGQRPTKRGLIYAATPASDFVCGTQQVASGITVQVFTTGRGTPYGLMAVPVIKMATRTELANRWFDLMDINAGTIATGEETIEEVGWKLFHFILDVASGKKKTFSDQWGLHNQLAVFNPAPVT

2018-4-27

2018-11-1

60.

66

T1001

140/140

Others,
University of Birmingham,
Andrew Lovering

receptor for unknown ligand to assist cell invasion

hard

Q6MIM9

X-RAY

>Q6MIM9
SISTRIGEYRSAQSKEDLIQKYLNQLPGSLCVFFKFLPSVRSFVATHASGIPGSDIQGVGVQLESNDMKELSSQMAIGLLPPRFTEMLVEAFHFSPPKALPLYAHNALEGVFVYSGQLPAEEVARMNEEFTLLSLCYSHF

2018-4-10

2019-1-1

61.

65

T1002

270/270

Others,
University of Birmingham,
Andrew Lovering

LD-transpeptidase; modifying cell wall during pathogenesis

2-domain, easy

Q184J8

X-RAY

>Q184J8
PIYKYALANVNLRSAKSTNSSIITVIPQGAKMEVLDEEDDWIKVMYNSQEGYVYKDLVSVSEYAWSNLNLREDKSTTSNIITVIPEKSRVEVLQVDGDWSKVVYDDKIGYVFNYFLSIDGNKPNELDYKYFYTDMIKFVNENNIKSTSDYLIVTDLRNKYTYIFKKDNGGWGQLYKWQCTIGKPETPTITGIFYISGRKPSFGTDEYSVKYATRIKGGYYYHSVLYDSTGSYIIDGRLGEALSHGCIRLSTENAKWIYDNIPDTTTVIIH

2018-4-10

2019-1-1

62.

109

T1003

474/474

Others,
University of California, Davis,
Andriy Kryshtafovych

From Brian Marsden:
ALAS2 has a conserved catalytic core (around 400aa), followed by a 50 aa C-terminal extension that is unexpectedly different from the yeast structure (with functional relevance as it turns out)

ALAS2

X-RAY

>ALAS2 [partial]
LQDGKSKIVQKAAPEVQEDVKAFKTGNYVFSYDQFFRDKIMEKKQDHTYRVFKTVNRWADAYPFAQHFSEASVASKDVSVWCSNDYLGMSRHPQVLQATQETLQRHGVGAGGTRNISGTSKFHVELEQELAELHQKDSALLFSSCFVANDSTLFTLAKILPGCEIYSDAGNHASMIQGIRNSGAAKFVFRHNDPDHLKKLLEKSNPKIPKIVAFETVHSMDGAICPLEELCDVSHQYGALTFVDEVHAVGLYGSRGAGIGERDGIMHKIDIISGTLGKAFGCVGGYIASTRDLVDMVRSYAAGFIFTTSLPPMVLSGALESVRLLKGEEGQALRRAHQRNVKHMRQLLMDRGLPVIPCPSHIIPIRVGNAALNSKLCDLLLSKHGIYVQAINYPTVPRGEELLRLAPSPHHSPQMMEDFVEKLLLAWTAVGLPLQDVSVAACNFCRRPVHFELMSEWERSYFGNMGPQYVTTYA

2018-6-21

2018-9-1

63.

38

T1004

458/458

Others,
Centro Nacional de Biotecnologia, Consejo Superior de Investigaciones Cientificas (CNB-CSIC),
Mark van Raaij

Baseplate protein of bacteriophage K, possibly involved in recognition of its Staphylococcus host. Fold unknown. The structure should also allow localization in the known EM map of the phage baseplate.
Note that a partial structure for this protein is already known, residues 229-458, PDB code 5M9F. Now we have the full-length unpublished structure, so the aim would be to test prediction of the structure of the remaining residues 62-228.

medium, 3mer, human

YP_009041344.1

X-RAY

>gp144-full-length
MALNFTTITENNVIRDLTTQVNNIGEELTKERNIFDITDDLVYNFNKSQKIKLTDDKGLTKSYGNITALRDIKEPGYYYIGARTLATLLDRPDMESLDVVLHVVPLDTSSKVVQHLYTLSTNNNQIKMLYRFVSGNSSSEWQFIQGLPSNKNAVISGTNILDIASPGVYFVMGMTGGMPSGVSSGFLDLSVDANDNRLARLTDAETGKEYTSIKKPTGTYTAWKKEFEPKDMEKYLLSSIRDDGSASFPLLVYTSDSKTFQQAIIDHIDRTGQTTFTFYVQGGVSGSPMSNSCRGLFMSDTPNTSSLHGVYNAIGTDGRNVTGSVVGSNWTSPKTSPSHKELWTGAQSFLSTGTTKNLSDDISNYSYVEVYTTHKTTEKTKGNDNTGTICHKFYLDGSGTYVCSGTFVSGDRTDTKPPITEFYRVGVSFKGSTWTLVDSAVQNSKTQYVTRIIGINMP

2018-3-1

2021-12-31

64.

100

T1005

364/364

Others,
University of Newcastle,
Arnaud Basle

BT1044

X-RAY

>
MKLLKYLCIGISALSILSCSDWTSEEREVFENQEGMHRLIPLIEAQTEEDLTPTMREYFAQIREYRKTPHVKGFGWFGNWTGKGNNAQNYLKMLPDSVDFVSLWGTRGYLSDEQKADLKFFQEVKGGKALLCWIIQDLGDQLTPKGLNATQYWVEEKGQGNFIEGVKAYANAICDSIEKYNLDGFDIDYEPGYGHSGTLANYQTISPSGNNKMQVFIETLSARLRPAGRMLVMDGQPDLLSTETSKLVDHYIYQAYWESSTSSVIYKINKPNLDDWERKTIITVEFEQGWKTGGITYYTSVRPELNSMEGNQILDYATLDLPSGKRIGGIGTYHMEYDYPNDPPYKWLRKALYFGNQVYPGKFD

2018-5-29

2018-1-1

65.

71

T1006

79/79

Others,
ben_Gurion University of the Negev,
Noa Keren

CTD domain. The dimmer is formed from one chain of the symmetrical unit and the other from the asymmetrical unit.

easy, dimer

>MamM magnetosome protein

X-RAY

>MamM magnetosome protein, Putative membrane transporter [Candidatus Desulfamplus magnetomortis BW-1]
DIYGDEITAVVSKIENVKGISQLKTRHIGQKIWAELNILVDPDSTIVQGETIASRVKKALTEQIRDIERVVVHFEPARK

2018-4-11

2019-1-31

66.

107

T1007

149/149

Others,
University of California, Davis,
Andriy Kryshtafovych

COMMONS target C0002 suggested by Hsin-Fang Yang-Yen (IMB, Taiwan)
May play an important role in maintaining normal growth homeostasis in epithelial cells.
=====
Being solved by G.Montelione_s group. Promising HSQC spectrum. It appears to be partially folded, and partially unfolded -- i.e.it has a large disordered region. We are in the process of trying to optimize buffer conditions, and should be able to get some NMR data.
Sample has been provided for SAXS

Proline-rich acidic protein 1

NMR

>PRAP1
MKRFLLATCLVAALLWEAGAAPAHQVPVKTKGKHVFPEQETEKVWDTRALEPLEKDNQLGPLLPEPKQKPAAAEEKRPDAMTWVETEDILSHLRSPLQGPELDLDSIDHPMSDDVQDEEVPQSRPILYRQVLQGPEEDLDHLAHSMEDS

2018-6-20

2019-1-1

67.

106

T1008

80/80

Others,
University of California, Davis,
Andriy Kryshtafovych

COMMONS target C0004 suggested by Brian Koepnick, (UW, Baker Lab)
Being solved by G.Montelione_s group.
=====
This protein was designed from scratch by citizen scientists playing the computer game Foldit. The sequence has no significant homology to any known protein sequence. Our own in vitro characterization of this protein shows that it is monomeric and contains a significant amount of secondary structure in solution; however, its tertiary structure has not yet been determined. 
=====
The protein has no intended function, but we are keen to learn if this designed protein sequence folds into the intended conformation. This would demonstrate the ability of laypeople to design stable folded proteins, which has far-reaching implications for protein design, and would mark a milestone in our understanding of the protein sequence_structure relationship.

UW_engnr

NMR

>UW_engnr
TDELLERLRQLFEELHERGTEIVVEVHINGERDEIRVRNISKEELKKLLERIREKIEREGSSEVEVNVHSGGQTWTFNEK

2018-6-20

2019-1-1

68.

103

T1009

718/718

Others,
Georgia Institute of Technology,
Hongnan Cao

Signal peptide was naturally cut off in the final secreted form.  It_s soluble fungi protein secreted form, which functions to remove xylose from xyloglucan hemicellulose. This protein is relatively large and PISA suggests dimer, the fold is very obvious consistent with electron density after I solved the structure despite the resolution is in the 2.7A level. There are ligands in it based on clear electron density, and prior knowledge of its function and crystal soaking conditions.

A2QTU5.1

X-RAY

>AxlA
TYFAPNSTGLRIQHGFETILIQPFGYDGFRVRAWPFRPPSGNEISFIYDPPIEGYEDTAHGMSYDTATTGTEPRTLRNGNIILRTTGWGGTTAGYRLSFYRVNDDGSETLLTNEYAPLKSLNPRYYYWPGPGAEFSAEFSFSATPDEQIYGTGTQQDHMINKKGSVIDMVNFNSYIPTPVFMSNKGYAFIWNMPAEGRMEFGTLRTRFTAASTTLVDYVIVAAQPGDYDTLQQRISALTGRAPAPPDFSLGYIQSKLRYENQTEVELLAQNFHDRNIPVSMIVIDYQSWAHQGDWALDPRLWPNVAQMSARVKNLTGAEMMASLWPSVADDSVNYAALQANGLLSATRDGPGTTDSWNGSYIRNYDSTNPSARKFLWSMLKKNYYDKGIKNFWIDQADGGALGEAYENNGQSTYIESIPFTLPNVNYAAGTQLSVGKLYPWAHQQAIEEGFRNATDTKEGSACDHVSLSRSGYIGSQRFCSMIWSGDTTSVWDTLAVQVASGLSAAATGWGWWTVDAGGFEVDSTVWWSGNIDTPEYRELYVRWLAWTTFLPFMRTHGSRTCYFQDAYTCANEPWSYGASNTPIIVSYIHLRYQLGAYLKSIFNQFHLTGRSIMRPLYMDFEKTDPKISQLVSSNSNYTTQQYMFGPRLLVSPVTLPNVTEWPVYLPQTGQNNTKPWTYWWTNETYAGGQVVKVPAPLQHIPVFHLGSREELLSGNVF

2018-6-13

2018-8-7

69.

108

T1010

210/210

Others,
Rice University, BRC,
Mitchell Miller

Protein of unknown function that is in the gene cluster involved in the biosynthesis of the natural product dynemicin. https:__www.ncbi.nlm.nih.gov_pmc_articles_PMC5591436_ (orf18 in paper)

It appears that a ligand from the E. coli expression system has co-purifed with the protein. We are still working on identifying it, but it looks similar to a fatty acid, e.g myristic acid seems to fit the density fairly well, but it could be something else or a mixture of myristic acid and shorter chain compounds.

B2BM43

X-RAY

>B2BM43
MSTKSVLFGRPVQTEGVPNVYAGAPVVPWTPPEPGIDNLGINSIDTFAVPGVGEYTVAFDGWVRVVRSPSTSGEWADAEVYTNLIEMKMVGECEELGKITVTLNPDCLSAGQIRTPFDPYAGEGPSAKACRMAVGAIFDMPKLGLKLMNREPIILTIDDVRSIPPAGAPGKGQIYRMMPLLDVNDPDGQPVAYLTSLRFNMGGYLKPDQM

2018-6-21

2018-10-1

70.

110

T1011

534/534

Others,
University of California, Davis,
Andriy Kryshtafovych

EP3 (from Ray Stevens). Contains misoprostol ligand. 
___
In regards to the ligand (and receptor), it is fairly easy to model 7 transmembrane helices (lots of templates, well understood properties of this protein family).   I would expect everyone to do well on this.  In the past we have done a CASP like assessment (published in 2009, 2013 or so) and the only thing that people really seem to care about is if the ligand can be placed accurately, this is what the GPCR field is looking for (and other proteins like kinases).

I do not think it would be fair to give hints.  Perhaps list as a bonus or stretch goal as part of this years CASP that CASP welcomes anyone who wants to try and model the ligand_  In the past, we accepted 10 models per modeler and asked them to rank their 10 in order of confidence or preference.    I am OK with the participants knowing the ligand, it is a very well established top 10 World Health Organization drug for women_s health to stop bleeding during pregnancy, particularly important in under developed countries.

UNK1

X-RAY

>UNK1
DYKDDDDGAPKETRGYGGDAPFCTRLNHSYTGMWAPERSAEARGNLTRPPGSGEDCGSVSVAFPITMLLTGFVGNALAMLLVSRSYRRRESKRKKSFLLCIGWLALTDLVGQLLTTPVVIVVYLSKQRWEHIDPSGRLCTFFGLTMTVFGLSSLFIASAMAVERALAIRAPHWYASHMKTRATRAVLLGVWLAVLAFALLPVLGVGQYTVQWPGTWCFISTGRGGNGTSSSHNWGNLFFASAFAFLGLLALTVTFSCNLATIKALVSRGSNIFEMLRIDEGLRLKIYKDTEGYYTIGIGHLLTKSPSLNAAKSELDKAIGRNTNGVITKDEAEKLFNQDVDATVRGILRNAKLKPVYDSLDAVRRAALINMVFQMGETGVAGFTNSLRMLQQKRWDEAAVNLAKSRWYNQTPNRAKRVITTFRTGTWDAYGSWGRITTETAIQLMAIMCVLSVCWSPLLIMMLKMIFNQTSVEHCKTHTEKQKECNFFLIAVRLASLNQILDPWVYLLLRKILGRPLEVLFQGPHHHHHHHHHH

2018-6-28

2018-8-1

71.

112

T1012

199/199

Others,
University of California, Davis,
Andriy Kryshtafovych

from T.Peat and J.Newman;
Data in hand; no structure; try models for MR

Puromycin N-acetyltransferase

X-RAY

>PUAC_STRAD
MTEYKPTVRLATRDDVPRAVRTLAAAFADYPATRHTVDPDRHIERVTELQELFLTRVGLDIGKVWVADDGAAVAVWTTPESVEAGAVFAEIGPRMAELSGSRLAAQQQMEGLLAPHRPKEPAWFLATVGVSPDHQGKGLGSAVVLPGVEAAERAGVPAFLETSAPRNLPFYERLGFTVTADVEVPEGPRTWCMTRKPGA

2018-6-29

2019-1-1

72.

113

T1013

537/537

Others,
University of California, Davis,
Andriy Kryshtafovych

SSTR (a GPCR from Ray Stevens):

This seq. corresponds to constructs 3862 and 3344, both solved with mutations D89N, V106E and S316D. The first construct (3862) was solved with the CYN-154806 ligand, while the second (3344) - with L-054,522 ligand.

UNK2

X-RAY

>UNK2
DMADEPLNGSHTWLSIPFDLNGSVVSTNTSNQTEPYYDLTSNAVLTFIYFVVCIIGLCGNTLVIYVILRYAKMKTITNIYILNLAIANELFMLGLPFLAMQVALEHWPFGKAICRVVMTVDGINQFTSIFCLTVMSIDRYLAVVHPIKSAKWRRPRTAKMITMAVWGVSLLVILPIMIYAGLRSNQWGRSSCTINWPGESGAWYTGFIIYTFILGFLVPLTIICLCYLFIIIKVKSASTDYWQNWTFGGGIVNAVNGSGGNYSVNWSNTGNFVVGKGWTTGSPFRTINYNAGVWAPNGNGYLTLYGWTRSPLIEYYVVDSWGTYRPTGTYKGTVKSDGGTYDIYTTTRYNAPSIDGDDTTFTQYWSVRQSKRPTGSNATITFTNHVNAWKSHGMNLGSNWAYQVMATEGYQSSGSSNVTVWSSKRKKSEKKVTRMVSIVVAVFIFCWLPFYIFNVSSVSMAISPTPALKGMFDFVVVLTYANSCANPILYAFLDDNFKKSFQNVLCLVKVSGTDDGERSDSKQDKSRLNETTETQRT

2018-7-2

2018-1-1

73.

114

T1014

276/276

Others,
University of California, Davis,

From Tilman Schirmer _ Badri Dubey

the domain structure can be predicted by homology, but their association is unusual and probably physiologically relevant. The sub-structure is part of a dimer, but its not involved in intra-dimer contacts.

WP_010918027.1

X-RAY

>WP_010918027.1
SLAPVDIEGLLRQVAELMSPRAHEKGIEIAWAVSSPLPTILADEGRLRQILLNFAGNAVKFTEAGGVLLTASAIDGGRVRFSVADTGPGVAPDARARIFEAFVQTDVTHATQLGGAGLGLAIVSRLSAAMGGAVGVGGELGQGAEFWFEAPFATAAAPLRAAPLEGRNVAIASPNAIVRAATARQIEAAGGRAYAAVDIASALAGAPADAVLLIDAALSGPRGALKPPAGRRSVVLLTPEQRDRIDRLKAAGFSGYLIKPLRAASLVAQVLQAVTA

2018-7-5

2019-1-1

74.

115

H1015

218/218

Others,
University of California, Davis,

From Karolina

CDI_213

X-RAY

>CdiI_213 B. ambifaria IOP40-10
MAKFACKCGYVINLIASPGGDEWRLIPEKTLEDIVDLLDGGEAVDGERFYETLRGKEITVYRCPSCGRLHLEEAGRNKFVTYVKECGEL
>CdiA_213 B. ambifaria IOP40-10
GQVTVEHGATPDSNETSAGRGLANAGYDVSHQPTASQQGVDGVRTADLSVKGVGQVDVYTPVNTNPNSIVRNIEGKFDQANGVIVQADLSNADMASIAARIWGKPNGQNFNTIFFQNSGGQIFKFNRPI

2018-7-5

2019-1-1

75.

121

T1016

203/203

Others,
University of California, Davis,

From Kemin Tan (Joachimiak):
Very likely it is a dimer

IDP96117

X-RAY

>IDP96117
MRLWLIRHGETQANIDGLYSGHAPTPLTARGIEQAQNLHTLLHGVSFDLVLCSELERAQHTARLVLSDRQLPVQIIPELNEMFFGDWEMRHHRDLMQEDAENYSAWCNDWQHAIPTNGEGFQAFSQRVERFIARLSEFQHYQNILVVSHQGVLSLLIARLIGMPAEAMWHFRVDQGCWSAIDINQKFATLRVLNSRAIGVENA

2018-7-6

2019-1-1

76.

117

H1017

240/240

Others,
University of California, Davis,

From Karolina

201_INDD4

X-RAY

>201_INDD4_refine_043.pdb|Chain=B (E.coli DEC9E)
LLLNDKQYNELCEAAEGRNLGAVFSYSEPEEPPPLNFSFEERKKIFLWVLTRLLKEGRIKLAKHGKFLEGSVDEQVERFRQAFPKTEEEMEDGIWFFDESCPGGAVWVLED
>201_INDD4_refine_043.pdb|Chain=D (E.coli DEC9E)
HQEVQQQRFDELSKIYDKSHPVGELTVDGQTIRQSSVSNRYGMTKVFESQNLTDKQIHNYAQQLAGDTPLKEVRPGIYTAKLENGTSITLRSLSSSQEQTGARWTIDIKGNKQLSDIAYKYKDVEIKFK

2018-7-5

2019-1-1

77.

120

T1018

334/334

Others,
University of California, Davis,
Andriy Kryshtafovych

From Natalia Maltseva (Joachimiak)
nmaltseva_anl.gov

IDP04388

X-RAY

>IDP04388 , NP_232377.1 adenosine deaminase
MITSSLPLTDLHRHLDGNIRTQTILELGQKFGVKLPANTLQTLTPYVQIVEAEPSLVAFLSKLDWGVAVLGDLDACRRVAYENVEDALNARIDYAELRFSPYYMAMKHSLPVTGVVEAVVDGVRAGVRDFGIQANLIGIMSRTFGTDACQQELDAILSQKNHIVAVDLAGDELGQPGDRFIQHFKQVRDAGLHVTVHAGEAAGPESMWQAIRDLGATRIGHGVKAIHDPKLMDYLAQHRIGIESCLTSNLQTSTVDSLATHPLKRFLEHGILACINTDDPAVEGIELPYEYEVAAPQAGLSQEQIRQAQLNGLELAFLSDSEKKALLAKAALRG

2018-7-6

2019-1-1

78.

116

H1019

146/146

Others,
University of California, Davis,

From Karolina

CDI207t

X-RAY

>CDI207t_refine_020.pdb|Chain=I (E.coli O32:H37)
GSYPCPCCGNKTIDEPGCYEICPICGWEDDPVQSADPDFSGGANSPSLNEAKRAFNEQ
>CDI207t_refine_020.pdb|Chain=A (E.coli O32:H37)
KVEPVGNAYGHWTKHGKEFPEYQNAKQYVDAAHNFMTNPPPGTLTKTRPNGDTLYYNPVTNVFASKDINGVPRTMFKPEKGIEYWNKQ

2018-7-5

2019-1-1

79.

122

T1020

1668/577

Others,
Columbia University,
Oliver Clarke

SLAC1

EM

>SLAC1
MAADPSSSTTTTGHGLHATEEARQAAMSGPISARRPPPPASQRAFSRQVSLGSGVTVLGMDRVGGGGRNGGRRSALPRSGKSLGVLNNNINHSGALGGGGGERRGGGDFSMFRTKSTLNKQNSMLPSRIREELDDVDLGRVEGGGQSAGRPDEDPLNKSVPAGRYFAALRGPELDEVRDYEDILLPKDEVWPFLLRFPIGCFGVCLGLGSQAILWGALAASPAMRFLRVTPMINLAVWLLAAAVLAATSVTYALKCVFYFEAIRREFFHPVRVNFFFTPSIAAMFLAIGLPRALAPADGRAMHPAVWCASVAPLFALELKIYGQWLSGGKRRLCKVANPSSHLSVVGNFVGAILAARVGWVEAGKFLWAIGVAHYIVVFVTLYQRLPTNEALPMELHPVYSMFIATPSAASLAWAAIYGSFDAVARTFFFMALFLYMSLVVRINFFRGFRFSIAWWSYTFPMTTASLATVKYAEAVPCFLSRALALSLSLMSTTMVSLLLVSTLLHAFVWRSLFPNDLAIAITKDRQNGGARPHGKGRKAGKRVYDIKRWAKQAPLSLVSSITKTNSADKEEEEKTD

2018-7-6

2019-1-1

80.

123

H1021

798/798

Others,
Institut de Biologie Structurale _IBS_,
Ambroise Desfosses

Components A and B have relatively closed homologs solved by cryo-EM on related biological systems. Component C is to our knowledge a new fold. The complex A-B-C was also not solved by other high-resolution techniques so far, also not for related organisms.

Q6HAD8,Q6HAD7,Q6HAC3

EM

>Q6HAD8:A
MAITADDIAVQYPIPTYRFIVTLGDEQVPFTSASGLDINFDTIEYRDGTGNWFKMPGQRQAPNITLSKGVFPGKNAMYEWINAIQLNQVEKKDIMISLTNEAGTEVLVSWNVSNAFPTSLTSPSFDATSNEIAVQQITLMADRVTIQTA
>Q6HAD7:B
MTVTTTYPGVYLSEDAVSSFSVNSAATAVPLFAYDSENTNTINKPIQVFRNWAEFTVEYPTPLEDAFYTSLSLWFMHGGGKCYLVNEANIADAVAQYDDITLIVAAGTDTTTYTAFTTVVGQGYRIFGLFDGPKEKIAGTAKPDEVMEEYPTSPFGAVFYPWGTLASGAAVPPSAIAAASITQTDRTRGVWKAPANQAVNGVTPAFAVSDDFQGKYNQGKALNMIRTFSGQGTVVWGARTLEDSDNWRYIPVRRLFNAVERDIQKSLNKLVFEPNSQPTWQRVKAAVDSYLHSLWQQGALAGNTPADAWFVQVGKDLTMTQEEINQGKMIIKIGLAAVRPAEFIILQFSQDIAQ
>Q6HAC3:C
MSMSNYQTLVDVNNAMNKMLRAYVNEAVAIRFDLPDVDATQADAAISVFLYDIHEDLQLRTAESRGFNAGAGRLLPGWVNVKCNYLITYWESTGPATDADNPDSQPDNQAIQVMSQVLAALINNRQLADIPGAYTQVMPPKENLNSLGNFWQSLGNRPRLSLNYCVTVPISLSDKGEEMTPVKSLSTTVEPKAPLSPLVITDALREQLRVALGGDYDACLAMTHVNLDSSPVANSDGSAAEIRVSLRVYGMTPTEYLAPMNTVFNEWEKSEAAAVTPDGYRVYINAVDKTDLTGI

2018-7-9

2019-1-1

81.

126

H1022

758/758

Others,
Institut de Biologie Structurale _IBS_,
Ambroise Desfosses

For Subunit 1 (MyComplex:A), no good homolog structure exists. For subunit 2, only a part of the protein has clear structural and sequence homologs.

Q6HAD2,Q6HAD1

EM

>Q6HAD2:A
MSLLERGLSKLTLNAWKDREGKIPAGSMSAMYNPETIQLDYQTRFDTEDTINTASQSNRYVISEPVGLNLTLLFDSQMPGNTTPIETQLAMLKSLCAVDAATGSPYFLRITWGKMRWENKGWFAGRARDLSVTYTLFDRDATPLRATVQLSLVADESFVIQQSLKTQSAPDRALVSVPDLASLPLLALSAGGVLASSVDYLSLAWDNDLDNLDDFQTGDFLRATKGEEV
>Q6HAD1:B
MSHITLDIAGQRSTLGIRRLRVQQLINEIPLAQLELHIPTDNHGAADNAVQHEVSRFTLGVRVGIAQDNKPLFDGYLVQKKMQLKGKEWSVRLEARHALQKLTFLPHSRVFRQQDDSTVMKGLLQSAGVKLTQESAAQLSSKHDQLLQFRLSDWQFIRSRLLSTNCWLLPDAASDTVVIRPLSDAAMASRTLARDSHDYTLYEINLNFDNRFTPDSLSLQGWDIAAQRLTAAQKSPAGAFRPWKPAGKVGQSSAGRQDYALAFSMLPEATLQTLSNSWLNYQQMTGVQGHIVLAGTRDFAPGESITLSGFGAGLDGTAMLSGVNQQFDTQYGWRSELVIGLPASMLEPAPPVRSLHIGTVAGFTADPQHLDRIAIHLPALNLPDSLIFARLSKPWASHASGFCFYPEPGDEVVVGFIDSDPRYPMILGALHNPKNTAPFPPDEKNNRKGLIVSQADQTQALMIDTEEKTLRLMAGDNTLTLTGEGNLTMSTPNALQLQADTLGLQADSNLSIAGKQQVEITSAKINMKK

2018-7-10

2019-1-1

82.

124

H1023

1120/1120

Others,
University of California, Davis,

From Adam Frost:

eIF2

EM

>IF2A_HUMAN Eukaryotic translation initiation factor 2 subunit 1 OS=Homo sapiens OX=9606 GN=EIF2S1 PE=1 SV=3
MPGLSCRFYQHKFPEVEDVVMVNVRSIAEMGAYVSLLEYNNIEGMILLSELSRRRIRSINKLIRIGRNECVVVIRVDKEKGYIDLSKRRVSPEEAIKCEDKFTKSKTVYSILRHVAEVLEYTKDEQLESLFQRTAWVFDDKYKRPGYGAYDAFKHAVSDPSILDSLDLNEDEREVLINNINRRLTPQAVKIRADIEVACYGYEGIDAVKEALRAGLNCSTENMPIKINLIAPPRYVMTTTTLERTEGLSVLSQAMAVIKEKIEEKRGVFNVQMEPKVVTDTDETELARQMERLERENAEVDGDDDAEEMEAKAED
>IF2B_HUMAN Eukaryotic translation initiation factor 2 subunit 2 OS=Homo sapiens OX=9606 GN=EIF2S2 PE=1 SV=2
MSGDEMIFDPTMSKKKKKKKKPFMLDEEGDTQTEETQPSETKEVEPEPTEDKDLEADEEDTRKKDASDDLDDLNFFNQKKKKKKTKKIFDIDEAEEGVKDLKIESDVQEPTEPEDDLDIMLGNKKKKKKNVKFPDEDEILEKDEALEDEDNKKDDGISFSNQTGPAWAGSERDYTYEELLNRVFNIMREKNPDMVAGEKRKFVMKPPQVVRVGTKKTSFVNFTDICKLLHRQPKHLLAFLLAELGTSGSIDGNNQLVIKGRFQQKQIENVLRRYIKEYVTCHTCRSPDTILQKDTRLYFLQCETCHSRCSVASIKTGFQAVTGKRAQLRAKAN
>IF2G_HUMAN Eukaryotic translation initiation factor 2 subunit 3 OS=Homo sapiens OX=9606 GN=EIF2S3 PE=1 SV=3
MAGGEAGVTLGQPHLSRQDLTTLDVTKLTPLSHEVISRQATINIGTIGHVAHGKSTVVKAISGVHTVRFKNELERNITIKLGYANAKIYKLDDPSCPRPECYRSCGSSTPDEFPTDIPGTKGNFKLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIAGNESCPQPQTSEHLAAIEIMKLKHILILQNKIDLVKESQAKEQYEQILAFVQGTVAEGAPIIPISAQLKYNIEVVCEYIVKKIPVPPRDFTSEPRLIVIRSFDVNKPGCEVDDLKGGVAGGSILKGVLKVGQEIEVRPGIVSKDSEGKLMCKPIFSKIVSLFAEHNDLQYAAPGGLIGVGTKIDPTLCRADRMVGQVLGAVGALPEIFTELEISYFLLRRLLGVRTEGDKKAAKVQKLSKNEVLMVNIGSLSTGGRVSAVKADLGKIVLTNPVCTEVGEKIALSRRVEKHWRLIGWGQIRRGVTIKPTVDDD

2018-7-9

2019-1-1

83.

119

homol_120

333/333

Others,
University of California, Davis,
Andriy Kryshtafovych

From Natalia Maltseva (Joachimiak)
nmaltseva_anl.gov

IDP00965

X-RAY

>IDP00965 ,NP_460426.1 adenosine deaminase
MIDITLPLTDIHRHLDGNIRAQTILDLGRQFNIALPAQTLETLIPHVQVTSTEPDLVSFLTKLDWGVKVLASLDACRRVAFENIEDAARNGLHYVELRFSPGYMAMAHQLPIAGVVEAVIDGVRDGCNTFGVEARLIGIMSRTFGEAACLQELDALLAHRENITALDLAGDELGFPGSLFLSHFNRARDAGWHITVHAGEAAGPESIWQAIRELGAERIGHGVKAVEDRALMDFLAQQRIGIESCLTSNIQTSTVASLADHPLKTFLEHGVLASLNTDDPAVQGVDIIHEYHVAAPAAGLSREQIRQAQINGLEIAFLSDSEKRALREKVAEA

2018-7-6

2019-1-1

84.

118

too easy

502/502

Others,
University of California, Davis,
Andriy Kryshtafovych

From Natalia Maltseva (Joachimiak)
nmaltseva_anl.gov

 Chain A, Inosine Monophosphate Dehydrogenase (Impdh) From Tritrichomonas Foetus With Rvp Bound 	754 	754 	99% 	0.0	71% 	1ME8_A

IDP06331

X-RAY

>IDP06331 NP_463665.1 inosine 5-monophosphate dehydrogenase
MAFYFEEPSRTFSEFLLVPGYSSAECVPTNVSLKTPIVKFKKGEESAITMNIPLVSAIMQAVSDDNMGIALATEGGVSFIFGSQSIESEAAMVSRVKNHKAGFVISDSNISPDKTLQDILDLKEKTGHSTVAVTEDGTAHGKLLGIVTSRDYRVTRMSPDEKVADFMTPFEKLVTANKSTTLKEANNIIWDNKLNALPLVDDNEHLVHMVFRKDYDSNKENKLELLDSSKRYVVGAGINTRDYEERVPALVEAGADILCIDSSEGYSEWQKRTLDYVRGKYGDTVKVGAGNVVDRDGFRYLAEAGADFVKVGVGGGSICITREQKGIGRGQATALIDVAKARDEYFEETGVYIPICSDGGIVYDYHMTLALAMGADFIMLGRYFSRFDESPTNKVNLNGTYMKEYWGEGANRARNWQRYDLGGDKKLSFEEGVDSYVPYAGSLKDNVAISLSKVRSTMCNCGALNIPELQQKAKITLVSSTSIVEGGAHDVVVKDASNNLIK

2018-7-6

2019-1-1

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