YRC Public Data Repository - Protein Structure Prediction

Protein:	YGFK_ECOLI
Organism:	Escherichia coli
Length:	1032 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 YGFK_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|195936495 - gi\|195936495\|ref\|ZP_03081877.1\| putative selenate reductase subunit YgfK [Escherichia coli O157:H7 s... gi\|208729387, gi... - gi\|208809586\|ref\|ZP_03251923.1\| putative selenate reductase [Escherichia coli O157:H7 str. EC4206], ... gi\|208813692, gi... - gi\|208813692\|ref\|ZP_03255021.1\| putative selenate reductase [Escherichia coli O157:H7 str. EC4045], ... gi\|208821336, gi... - gi\|208821336\|ref\|ZP_03261656.1\| putative selenate reductase [Escherichia coli O157:H7 str. EC4042], ... gi\|187768729, gi... - gi\|187768729\|gb\|EDU32573.1\| oxidoreductase, pyridine nucleotide-disulfide family [Escherichia coli O... gi\|254594230, gi... - gi\|254794830\|ref\|YP_003079667.1\| predicted oxidoreductase, Fe-S subunit [Escherichia coli O157:H7 st... gi\|189003585, gi... - gi\|189003585\|gb\|EDU72571.1\| oxidoreductase, pyridine nucleotide-disulfide family [Escherichia coli O... gi\|168785723, gi... - gi\|189373846\|gb\|EDU92262.1\| oxidoreductase, pyridine nucleotide-disulfide family [Escherichia coli O... YGFK_ECO57 - Uncharacterized protein YgfK OS=Escherichia coli O157:H7 GN=ygfK PE=3 SV=1 gi\|189377669, gi... - gi\|189377669\|gb\|EDU96085.1\| oxidoreductase, pyridine nucleotide-disulfide family [Escherichia coli O... gi\|188017870, gi... - gi\|188017870\|gb\|EDU55992.1\| oxidoreductase, pyridine nucleotide-disulfide family [Escherichia coli O... gi\|189358433, gi... - gi\|189358433\|gb\|EDU76852.1\| oxidoreductase, pyridine nucleotide-disulfide family [Escherichia coli O... gi\|189369351, gi... - gi\|189369351\|gb\|EDU87767.1\| oxidoreductase, pyridine nucleotide-disulfide family [Escherichia coli O... gi\|189363696, gi... - gi\|189363696\|gb\|EDU82115.1\| oxidoreductase, pyridine nucleotide-disulfide family [Escherichia coli O... gi\|209760706, gi... - pir\|\|C85943 probable oxidoreductase, Fe-S subunit Z4217 [imported] - Escherichia coli (strain O157:H... gi\|12517402, gi\|... - gi\|15803415\|ref\|NP_289448.1\| putative selenate reductase subunit YgfK [Escherichia coli O157:H7 EDL9... gi\|13363223, gi\|... - gi\|15833005\|ref\|NP_311778.1\| putative selenate reductase subunit YgfK [Escherichia coli O157:H7 str.... gi\|209159577, gi... - gi\|209398177\|ref\|YP_002272353.1\| putative selenate reductase [Escherichia coli O157:H7 str. EC4115],... gi\|217319306, gi... - gi\|217326939\|ref\|ZP_03443022.1\| putative selenate reductase [Escherichia coli O157:H7 str. TW14588],...	1085.0	[0..1]	[1032..1]
gi\|193063484, gi... - gi\|75258477\|ref\|ZP_00729899.1\| COG0493: NADPH-dependent glutamate synthase beta chain and related ox... gi\|191166029, gi... - gi\|75230851\|ref\|ZP_00717309.1\| COG0493: NADPH-dependent glutamate synthase beta chain and related ox... gi\|75212508, gi\|... - gi\|75212508\|ref\|ZP_00712532.1\| COG0493: NADPH-dependent glutamate synthase beta chain and related ox...	1083.0	[0..1]	[1032..1]
gi\|193070533, gi... - gi\|75234606\|ref\|ZP_00718937.1\| COG0493: NADPH-dependent glutamate synthase beta chain and related ox...	1082.0	[0..1]	[1032..1]
gi\|188493487, gi... - gi\|75515339\|ref\|ZP_00737523.1\| COG0493: NADPH-dependent glutamate synthase beta chain and related ox...	1081.0	[0..1]	[1032..1]
gi\|157078708, gi... - gi\|75187594\|ref\|ZP_00700861.1\| COG0493: NADPH-dependent glutamate synthase beta chain and related ox...	1081.0	[0..1]	[1032..1]
gi\|253772281, gi... - gi\|254289551\|ref\|YP_003055299.1\| predicted oxidoreductase, Fe-S subunit [Escherichia coli BL21(DE3)]... gi\|242378411, gi... - gi\|251786138\|ref\|YP_003000442.1\| hypothetical protein B21_02673 [Escherichia coli BL21], gi\|24237841... gi\|253974692, gi... - gi\|254162791\|ref\|YP_003045899.1\| predicted oxidoreductase, Fe-S subunit [Escherichia coli B str. REL... gi\|157162339, gi... - gi\|75196830\|ref\|ZP_00706900.1\| COG0493: NADPH-dependent glutamate synthase beta chain and related ox... gi\|83587727, gi\|... - gi\|83587727\|ref\|ZP_00926354.1\| COG0493: NADPH-dependent glutamate synthase beta chain and related ox...	1081.0	[0..1]	[1032..1]
gi\|91212256, gi\|... - gi\|91212256\|ref\|YP_542242.1\| putative selenate reductase subunit YgfK [Escherichia coli UTI89], gi\|9... gi\|237706479, gi... - gi\|237706479\|ref\|ZP_04536960.1\| conserved hypothetical protein [Escherichia sp. 3_2_53FAA], gi\|22689... gi\|115514234, gi... - gi\|117625110\|ref\|YP_854098.1\| putative selenate reductase subunit YgfK [Escherichia coli APEC O1], g... gi\|218366640, gi... - gi\|218559871\|ref\|YP_002392784.1\| putative selenate reductase subunit YgfK [Escherichia coli S88], gi...	1081.0	[0..1]	[1032..1]
gi\|26109698, gi\|... - gi\|26249291\|ref\|NP_755331.1\| putative selenate reductase subunit YgfK [Escherichia coli CFT073], gi\|... gi\|227834695, gi... - gi\|227888426\|ref\|ZP_04006231.1\| selenate reductase subunit YgfK [Escherichia coli 83972], gi\|2278346...	1079.0	[0..1]	[1032..1]
gi\|110344619, gi... - gi\|110643027\|ref\|YP_670757.1\| putative selenate reductase subunit YgfK [Escherichia coli 536], gi\|11... gi\|75239222, gi\|... - gi\|75239222\|ref\|ZP_00723195.1\| COG0493: NADPH-dependent glutamate synthase beta chain and related ox...	1077.0	[0..1]	[1032..1]
gi\|54309129, gi\|... - gi\|54309129\|ref\|YP_130149.1\| putative selenate reductase subunit YgfK [Photobacterium profundum SS9]...	1020.0	[0..1]	[1032..1]

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Predicted Domain #1

Region A:
Residues: [1-199]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MGDIMRPIPF EELLTRIFDE YQQQRSIFGI PEQQFYSPVK GKTVSVFGET CATPVGPAAG  60
   61 PHTQLAQNIV TSWLTGGRFI ELKTVQILDR LELEKPCIDA EDECFNTEWS TEFTLLKAWD 120
  121 EYLKAWFALH LLEAMFQPSD SGKSFIFNMS VGYNLEGIKQ PPMQQFIDNM MDASDHPKFA 180
  181 QYRDTLNKLL QDDAFLARH

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #2

Region A:
Residues: [200-816]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GLQEKRESLQ ALPARIPTSM VHGVTLSTMH GCPPHEIEAI CRYMLEEKGL NTFVKLNPTL  60
   61 LGYARVREIL DVCGFGYIGL KEESFDHDLK LTQALEMLER LMALAKEKSL GFGVKLTNTL 120
  121 GTINNKGALP GEEMYMSGRA LFPLSINVAA VLSRAFDGKL PISYSGGASQ LTIRDIFDTG 180
  181 IRPITMATDL LKPGGYLRLS ACMRELEGSD AWGLDHVDVE RLNRLAADAL TMEYTQKHWK 240
  241 PEERIEVAED LPLTDCYVAP CVTACAIKQD IPEYIRLLGE HRYADALELI YQRNALPAIT 300
  301 GHICDHQCQY NCTRLDYDSA LNIRELKKVA LEKGWDEYKQ RWHKPAGSGS RHPVAVIGAG 360
  361 PAGLAAGYFL ARAGHPVTLF EREANAGGVV KNIIPQFRIP AELIQHDIDF VAAHGVKFEY 420
  421 GCSPDLTIEQ LKNQGFHYVL IATGTDKNSG VKLAGDNQNV WKSLPFLREY NKGTALKLGK 480
  481 HVVVVGAGNT AMDCARAALR VPGVEKATIV YRRSLQEMPA WREEYEEALH DGVEFRFLNN 540
  541 PERFDADGTL TLRVMSLGEP DEKGRRRPVE TNETVTLLVD SLITAIGEQQ DTEALNAMGV 600
  601 PLDKNGWPDV DHNGETR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	93.39794
Match:	1ps9A
Description:	The Crystal Structure and Reaction Mechanism of E. coli 2,4-Dienoyl CoA Reductase
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
catalytic activity	1.13824203225664	bayes_pls_golite062009
oxidoreductase activity, acting on sulfur group of donors, NAD or NADP as acceptor	0.384435272305167	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-NH2 group of donors	0.201800390587271	bayes_pls_golite062009
oxidoreductase activity	0.106121647378647	bayes_pls_golite062009

Predicted Domain #3

Region A:
Residues: [817-1032]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LTDVFMIGDV QRGPSSIVAA VGTARRATDA ILSRENIRSH QNDKYWNNVN PAEIYQRKGD  60
   61 ISITLVNSDD RDAFVAQEAA RCLECNYVCS KCVDVCPNRA NVSIAVPGFQ NRFQTLHLDA 120
  121 YCNECGNCAQ FCPWNGKPYK DKITVFSLAQ DFDNSSNPGF LVEDCRVRVR LNNQSWVLNI 180
  181 DSKGQFNNVP PELNDMCRII SHVHQHHHYL LGRVEV

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	65.39794
Match:	1zy8A
Description:	The crystal structure of dihydrolipoamide dehydrogenase and dihydrolipoamide dehydrogenase-binding protein (didomain) subcomplex of human pyruvate dehydrogenase complex.
Matching Structure (courtesy of the PDB):

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: