YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|73857227, gi\|...
Organism:	Shigella sonnei Ss046
Length:	472 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|73857227, gi|....

Description	E-value	Query Range	Subject Range
gi\|157158812, gi... - gi\|75188019\|ref\|ZP_00701286.1\| COG0493: NADPH-dependent glutamate synthase beta chain and related ox...	478.0	[0..1]	[472..1]
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...	478.0	[0..1]	[472..1]
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...	477.0	[0..1]	[472..1]
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...	477.0	[0..1]	[472..1]
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...	476.0	[0..1]	[472..1]
gi\|191168646, gi... - gi\|75228174\|ref\|ZP_00714839.1\| COG0493: NADPH-dependent glutamate synthase beta chain and related ox...	476.0	[0..1]	[472..1]
gi\|254795162, gi... - gi\|254795162\|ref\|YP_003079999.1\| glutamate synthase, 4Fe-4S protein, small subunit [Escherichia coli... gi\|209757910, gi... - pir\|\|G85985 glutamate synthase, small subunit [imported] - Escherichia coli (strain O157:H7, substra... gi\|15803753, gi\|... - gi\|15803753\|ref\|NP_289787.1\| glutamate synthase subunit beta [Escherichia coli O157:H7 EDL933], gi\|1... gi\|13363565, gi\|... - gi\|15833346\|ref\|NP_312119.1\| glutamate synthase small subunit [Escherichia coli O157:H7], gi\|1336356... gi\|217327316, gi... - gi\|217327316\|ref\|ZP_03443399.1\| glutamate synthase (NADPH), small subunit [Escherichia coli O157:H7 ... gi\|195939413 - gi\|195939413\|ref\|ZP_03084795.1\| glutamate synthase subunit beta [Escherichia coli O157:H7 str. EC402... gi\|13363565, gi\|... - gi\|15833346\|ref\|NP_312119.1\| glutamate synthase subunit beta [Escherichia coli O157:H7 str. Sakai], ... gi\|168800928, gi... - gi\|189376839\|gb\|EDU95255.1\| glutamate synthase (NADPH), small subunit [Escherichia coli O157:H7 str.... gi\|189373806, gi... - gi\|189373806\|gb\|EDU92222.1\| glutamate synthase (NADPH), small subunit [Escherichia coli O157:H7 str.... gi\|189000993, gi... - gi\|189000993\|gb\|EDU69979.1\| glutamate synthase (NADPH), small subunit [Escherichia coli O157:H7 str.... gi\|209399690, gi... - gi\|209399690\|ref\|YP_002272683.1\| glutamate synthase (NADPH), small subunit [Escherichia coli O157:H7... gi\|208819428, gi... - gi\|208819428\|ref\|ZP_03259748.1\| glutamate synthase (NADPH), small subunit [Escherichia coli O157:H7 ... gi\|208734777, gi... - gi\|208813500\|ref\|ZP_03254829.1\| glutamate synthase (NADPH), small subunit [Escherichia coli O157:H7 ... gi\|208727330, gi... - gi\|208807529\|ref\|ZP_03249866.1\| glutamate synthase (NADPH), small subunit [Escherichia coli O157:H7 ... gi\|168751620, gi... - gi\|188014392\|gb\|EDU52514.1\| glutamate synthase (NADPH), small subunit [Escherichia coli O157:H7 str.... gi\|187767464, gi... - gi\|187767464\|gb\|EDU31308.1\| glutamate synthase (NADPH), small subunit [Escherichia coli O157:H7 str.... gi\|168769070, gi... - gi\|189361847\|gb\|EDU80266.1\| glutamate synthase (NADPH), small subunit [Escherichia coli O157:H7 str.... gi\|168763751, gi... - gi\|189366155\|gb\|EDU84571.1\| glutamate synthase (NADPH), small subunit [Escherichia coli O157:H7 str.... gi\|189358630, gi... - gi\|189358630\|gb\|EDU77049.1\| glutamate synthase (NADPH), small subunit [Escherichia coli O157:H7 str....	476.0	[0..1]	[472..1]
gi\|110643453, gi... - gi\|110643453\|ref\|YP_671183.1\| glutamate synthase subunit beta [Escherichia coli 536], gi\|110345045\|g... gi\|190905298, gi... - gi\|75236484\|ref\|ZP_00720579.1\| COG0493: NADPH-dependent glutamate synthase beta chain and related ox...	476.0	[0..1]	[472..1]
gi\|192956362, gi... - gi\|75234873\|ref\|ZP_00719164.1\| COG0493: NADPH-dependent glutamate synthase beta chain and related ox...	475.0	[0..1]	[472..1]
gi\|82545550, gi\|... - gi\|82545550\|ref\|YP_409497.1\| glutamate synthase subunit beta [Shigella boydii Sb227], gi\|81246961\|gb...	475.0	[0..1]	[472..1]

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Predicted Domain #1

Region A:
Residues: [1-472]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSQNVYQFID LQRVDPPKKP LKIRKIEFVE IYEPFSEGQA KAQADRCLSC GNPYCEWKCP  60
   61 VHNYIPNWLK LANEGRIFEA AELSHQTNTL PEVCGRVCPQ DRLCEGSCTL NDEFGAVTIG 120
  121 NIERYINDKA FEMGWRPDMS GVKQTGKKVA IIGAGPAGLA CADVLTRNGV KAVVFDRHPE 180
  181 IGGLLTFGIP AFKLEKEVMT RRREIFTGMG IEFKLNTEVG RDVQLDDLLS DYDAVFLGVG 240
  241 TYQSMRGGLE NEDADGVYAA LPFLIANTKQ LMGFGETRDE PFVSMEGKRV VVLGGGDTAM 300
  301 DCVRTSVRQG AKHVTCAYRR DEENMPGSRR EVKNAREEGV EFKFNVQPLG IEVNGNGKVS 360
  361 GVKMVRTEMG EPDAKGRRRA EIVAGSEHIV PADAVIMAFG FRPHNMEWLA KHSVELDSQG 420
  421 RIIAPEGSDN AFQTSNPKIF AGGDIVRGSD LVVTAIAEGR KAADGIMNWL EV

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	72.69897
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: