YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24372902, gi\|...
Organism:	Shewanella oneidensis MR-1
Length:	468 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

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Top Sequence Alignment Hits

Listed below are up to the top 10 sequence alignment matches, by species, for the PSI-BLAST search against the protein sequence for gi|24372902, gi|....

Description	E-value	Query Range	Subject Range
gi\|90580606, gi\|... - gi\|90580606\|ref\|ZP_01236411.1\| glutamate synthase, small subunit [Vibrio angustum S14], gi\|90438264\|...	405.0	[0..3]	[468..4]
gi\|89951927, gi\|... - gi\|90022327\|ref\|YP_528154.1\| glutamate synthase subunit beta [Saccharophagus degradans 2-40], gi\|899...	405.0	[0..1]	[468..16]
gi\|157158812, gi... - gi\|75188019\|ref\|ZP_00701286.1\| COG0493: NADPH-dependent glutamate synthase beta chain and related ox...	403.0	[0..3]	[468..4]
gi\|89072509, gi\|... - gi\|89072509\|ref\|ZP_01159081.1\| glutamate synthase, small subunit [Photobacterium sp. SKA34], gi\|8905...	403.0	[0..3]	[468..4]
EG10404 - glutamate synthase, 4Fe-4S protein, small subunit / Glutamate synthase, small subunit gi\|170082747, gi... - gi\|170082747\|ref\|YP_001732067.1\| glutamate synthase, 4Fe-4S protein, small subunit [Escherichia coli... gi\|194434494, gi... - gi\|194434494\|ref\|ZP_03066754.1\| glutamate synthase (NADPH), small subunit [Shigella dysenteriae 1012... gi\|75176095, gi\|... - gi\|75176095\|ref\|ZP_00696263.1\| COG0493: NADPH-dependent glutamate synthase beta chain and related ox... gi\|209913948, gi... - gi\|209920689\|ref\|YP_002294773.1\| glutamate synthase subunit beta [Escherichia coli SE11], gi\|2099139... GLTD_ECOLI - Glutamate synthase [NADPH] small chain (EC 1.4.1.13) (Glutamate synthase subunit beta) (NADPH-GOGAT)... gi\|73857227, gi\|... - gi\|74313750\|ref\|YP_312169.1\| glutamate synthase subunit beta [Shigella sonnei Ss046], gi\|73857227\|gb... gi\|218353650, gi... - gi\|218696918\|ref\|YP_002404585.1\| glutamate synthase subunit beta [Escherichia coli 55989], gi\|218353... gi\|238861333, gi... - gi\|238902315\|ref\|YP_002928111.1\| glutamate synthase, 4Fe-4S protein, small subunit [Escherichia coli... EG10404 - glutamate synthase, 4Fe-4S protein, small subunit / Glutamate synthase, small subunit gi\|85676007, gi\|... - gi\|89109976\|ref\|AP_003756.1\| glutamate synthase, 4Fe-4S protein, small subunit [Escherichia coli str...	402.0	[0..3]	[468..4]
gi\|237706034, gi... - gi\|237706034\|ref\|ZP_04536515.1\| glutamate synthase subunit beta [Escherichia sp. 3_2_53FAA], gi\|2268... gi\|115514629, gi... - gi\|117625505\|ref\|YP_858828.1\| glutamate synthase subunit beta [Escherichia coli APEC O1], gi\|1155146... gi\|218560283, gi... - gi\|218560283\|ref\|YP_002393196.1\| glutamate synthase subunit beta [Escherichia coli S88], gi\|21836705... gi\|91212639, gi\|... - gi\|91212639\|ref\|YP_542625.1\| glutamate synthase subunit beta [Escherichia coli UTI89], gi\|91074213\|g...	402.0	[0..3]	[468..4]
gi\|251786483, gi... - gi\|251786483\|ref\|YP_003000787.1\| hypothetical protein B21_03029 [Escherichia coli BL21], gi\|24237875... gi\|254038378, gi... - gi\|254038378\|ref\|ZP_04872436.1\| glutamate synthase [Escherichia sp. 1_1_43], gi\|226840002\|gb\|EEH7202... gi\|124528493, gi... - gi\|124528493\|ref\|ZP_01699782.1\| glutamate synthase, small subunit [Escherichia coli B], gi\|124500516... gi\|170018537, gi... - gi\|170018537\|ref\|YP_001723491.1\| glutamate synthase subunit beta [Escherichia coli ATCC 8739], gi\|16... gi\|253771953, gi... - gi\|254289905\|ref\|YP_003055653.1\| glutamate synthase, 4Fe-4S protein, small subunit [Escherichia coli... gi\|188487423, gi... - gi\|75511884\|ref\|ZP_00734496.1\| COG0493: NADPH-dependent glutamate synthase beta chain and related ox... gi\|254163155, gi... - gi\|254163155\|ref\|YP_003046263.1\| glutamate synthase, 4Fe-4S protein, small subunit [Escherichia coli... gi\|157162697, gi... - gi\|75197162\|ref\|ZP_00707232.1\| COG0493: NADPH-dependent glutamate synthase beta chain and related ox... gi\|194421879, gi... - gi\|83585409\|ref\|ZP_00924055.1\| COG0493: NADPH-dependent glutamate synthase beta chain and related ox...	402.0	[0..3]	[468..4]
gi\|193065370, gi... - gi\|75256589\|ref\|ZP_00728219.1\| COG0493: NADPH-dependent glutamate synthase beta chain and related ox... gi\|75209656, gi\|... - gi\|75209656\|ref\|ZP_00709868.1\| COG0493: NADPH-dependent glutamate synthase beta chain and related ox...	402.0	[0..3]	[468..4]
gi\|24053687, gi\|... - gi\|24114501\|ref\|NP_709011.1\| glutamate synthase subunit beta [Shigella flexneri 2a str. 301], gi\|240... gi\|30064550, gi\|... - gi\|30064550\|ref\|NP_838721.1\| glutamate synthase subunit beta [Shigella flexneri 2a str. 2457T], gi\|3...	402.0	[0..3]	[468..4]
gi\|191168646, gi... - gi\|75228174\|ref\|ZP_00714839.1\| COG0493: NADPH-dependent glutamate synthase beta chain and related ox...	402.0	[0..3]	[468..4]

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Predicted Domain #1

Region A:
Residues: [1-468]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSNDFQFIEV GRKDPTKHPA AKRSTQFIEI YQPFAQAQVS EQADRCLDCG NPYCEWKCPL  60
   61 HNYIPNWLKL AQQGRIMEAA DLVHETNTLP EICGRVCPQD RLCEGACTLN ADFGAVTIGN 120
  121 VEKYITDTAI AQGWRPDMSK VTPRKEKVAI VGAGPAGLGC ADILARNGVK AVVFDKYPQI 180
  181 GGLLTYGIPA FKLDKAVMAT RRTVLEGMGI EFKLGVTVGK DVAFNQLLEE YDAVFLGMGT 240
  241 YTAMKAGLEG EDAQGVYQAL PYLIGNTHHL MGSTSPDMPY LNLAGKRVVV LGGGDTAMDC 300
  301 VRTAVRQGAS SVICAYRRDE ANMPGSRREV QNAREEGVNF LFNRQPVAIK TQDGKVLGVE 360
  361 CVETQMGKAD ASGRQRAEAI VGSEQLLEAD AVIIAFGFQP SPAPWFADYG IELDQWGRVK 420
  421 ASKQADNPFQ TTNPKVFAGG DMVRGSDLVV TAIAEGRDAA QGILNYLD

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	65.522879
Match:	1h7xA
Description:	Dihydropyrimidine dehydrogenase, N-terminal domain; Dihydropyrimidine dehydrogenase, domain 4; Dihydropyrimidine dehydrogenase, domain 3; Dihydropyrimidine dehydrogenase, domain 2; Dihydropyrimidine dehydrogenase, C-terminal domain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
glutamate synthase activity	8.25305391467034	bayes_pls_golite062009
glutamate synthase activity, NADH or NADPH as acceptor	8.23578981764913	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-NH2 group of donors, NAD or NADP as acceptor	7.02480361242491	bayes_pls_golite062009
glutamate synthase (NADPH) activity	6.79992270958953	bayes_pls_golite062009
succinate dehydrogenase activity	1.80846474206463	bayes_pls_golite062009
oxidoreductase activity	1.79641444157516	bayes_pls_golite062009
catalytic activity	1.56773888754354	bayes_pls_golite062009
oxidoreductase activity, acting on sulfur group of donors, NAD or NADP as acceptor	0.384435272305167	bayes_pls_golite062009

TMHMM	2.0c	PSIPRED	v2.61
SignalP	3.0	COILS	1999
DISOPRED	v0.1	NCBI nr	06/2007
PSI-BLAST	2.2.18	FFAS	ffas03
PDB	06/2007	Pfam	22
HMMER	2.3.2

View Structure Prediction Details

Top Sequence Alignment Hits

Predicted functions: