YRC Public Data Repository - Protein Structure Prediction

Protein:	YFID_ECOLI, GRCA...
Organism:	Escherichia coli
Length:	127 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 YFID_ECOLI, GRCA....

Description	E-value	Query Range	Subject Range
gi\|237705089, gi... - gi\|237705089\|ref\|ZP_04535570.1\| yfiD [Escherichia sp. 3_2_53FAA], gi\|226901455\|gb\|EEH87714.1\| yfiD [... gi\|26109350, gi\|... - gi\|26248944\|ref\|NP_754984.1\| Protein yfiD [Escherichia coli CFT073], gi\|26109350\|gb\|AAN81552.1\|AE016... gi\|91211906, gi\|... - gi\|91211906\|ref\|YP_541892.1\| protein YfiD [Escherichia coli UTI89], gi\|91073480\|gb\|ABE08361.1\| prote...	200.0	[0..1]	[127..7]
GRCA_ECOL6 - Autonomous glycyl radical cofactor OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) GN... gi\|162138388 - gi\|162138388\|ref\|YP_541892.2\| autonomous glycyl radical cofactor GrcA [Escherichia coli UTI89] GRCA_ECO27 - Autonomous glycyl radical cofactor OS=Escherichia coli O127:H6 (strain E2348/69 / EPEC) GN=grcA PE=3... GRCA_ESCF3 - Autonomous glycyl radical cofactor OS=Escherichia fergusonii (strain ATCC 35469 / DSM 13698 / CDC 05... GRCA_ECOSM - Autonomous glycyl radical cofactor OS=Escherichia coli (strain SMS-3-5 / SECEC) GN=grcA PE=3 SV=1 gi\|170767612, gi... - gi\|170767612\|ref\|ZP_02902065.1\| autonomous glycyl radical cofactor [Escherichia albertii TW07627], g... GRCA_ECOL6 - Autonomous glycyl radical cofactor OS=Escherichia coli O6 GN=grcA PE=3 SV=2 GRCA_ECOL5 - Autonomous glycyl radical cofactor OS=Escherichia coli O6:K15:H31 (strain 536 / UPEC) GN=grcA PE=3 S... gi\|227835965, gi... - gi\|227887615\|ref\|ZP_04005420.1\| autonomous glycyl radical cofactor GrcA [Escherichia coli 83972], gi... GRCA_ECOK1 - Autonomous glycyl radical cofactor OS=Escherichia coli O1:K1 / APEC GN=grcA PE=3 SV=1 sp\|B7UH18\|GRCA_ECO27 - Autonomous glycyl radical cofactor OS=Escherichia coli O127:H6 (strain E2348/69 / EPEC) GN=grcA PE=3... gi\|191174033, gi... - gi\|75237402\|ref\|ZP_00721437.1\| COG3445: Acid-induced glycyl radical enzyme [Escherichia coli F11], g... GRCA_ECOLU - Autonomous glycyl radical cofactor OS=Escherichia coli O17:K52:H18 (strain UMN026 / ExPEC) GN=grcA P... GRCA_ECO45 - Autonomous glycyl radical cofactor OS=Escherichia coli O45:K1 (strain S88 / ExPEC) GN=grcA PE=3 SV=1 GRCA_ECO7I - Autonomous glycyl radical cofactor OS=Escherichia coli O7:K1 (strain IAI39 / ExPEC) GN=grcA PE=3 SV=...	199.0	[0..1]	[127..1]
GRCA_SHIF8 - Autonomous glycyl radical cofactor OS=Shigella flexneri serotype 5b (strain 8401) GN=grcA PE=3 SV=1	197.0	[0..1]	[127..1]
GRCA_SALTY - Autonomous glycyl radical cofactor OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) G... GRCA_SALPK - Autonomous glycyl radical cofactor OS=Salmonella paratyphi A (strain AKU_12601) GN=grcA PE=3 SV=1 gi\|29140799, gi\|... - gi\|29140799\|ref\|NP_804141.1\| autonomous glycyl radical cofactor GrcA [Salmonella enterica subsp. ent... gi\|200388273, gi... - gi\|200388273\|ref\|ZP_03214885.1\| autonomous glycyl radical cofactor [Salmonella enterica subsp. enter... gi\|204321303, gi... - gi\|204929584\|ref\|ZP_03220658.1\| autonomous glycyl radical cofactor [Salmonella enterica subsp. enter... GRCA_SALTI - Autonomous glycyl radical cofactor OS=Salmonella typhi GN=grcA PE=3 SV=1 GRCA_SALG2 - Autonomous glycyl radical cofactor OS=Salmonella gallinarum (strain 287/91 / NCTC 13346) GN=grcA PE=... gi\|194468841, gi... - gi\|194468841\|ref\|ZP_03074825.1\| autonomous glycyl radical cofactor [Salmonella enterica subsp. enter... GRCA_SALSV - Autonomous glycyl radical cofactor OS=Salmonella schwarzengrund (strain CVM19633) GN=grcA PE=3 SV=1 gi\|16761504 - gi\|16761504\|ref\|NP_457121.1\| autonomous glycyl radical cofactor GrcA [Salmonella enterica subsp. ent... GRCA_SALA4 - Autonomous glycyl radical cofactor OS=Salmonella agona (strain SL483) GN=grcA PE=3 SV=1 gi\|197242041, gi... - gi\|197263786\|ref\|ZP_03163860.1\| autonomous glycyl radical cofactor [Salmonella enterica subsp. enter... gi\|168468060, gi... - gi\|195628854\|gb\|EDX48268.1\| autonomous glycyl radical cofactor [Salmonella enterica subsp. enterica ... gi\|238912711 - gi\|238912711\|ref\|ZP_04656548.1\| autonomous glycyl radical cofactor GrcA [Salmonella enterica subsp. ... gi\|205340548, gi... - gi\|205340548\|gb\|EDZ27312.1\| autonomous glycyl radical cofactor [Salmonella enterica subsp. enterica ... GRCA_SALNS - Autonomous glycyl radical cofactor OS=Salmonella newport (strain SL254) GN=grcA PE=3 SV=1 GRCA_SALHS - Autonomous glycyl radical cofactor OS=Salmonella heidelberg (strain SL476) GN=grcA PE=3 SV=1 gi\|205333529, gi... - gi\|205333529\|gb\|EDZ20293.1\| autonomous glycyl radical cofactor [Salmonella enterica subsp. enterica ... gi\|197288850, gi... - gi\|197288850\|gb\|EDY28223.1\| autonomous glycyl radical cofactor [Salmonella enterica subsp. enterica ... gi\|205336139, gi... - gi\|205336139\|gb\|EDZ22903.1\| autonomous glycyl radical cofactor [Salmonella enterica subsp. enterica ... gi\|205349659, gi... - gi\|205349659\|gb\|EDZ36290.1\| autonomous glycyl radical cofactor [Salmonella enterica subsp. enterica ... lcl\|NC_016856.1_... - [gene=yfiD] [protein=autonomous glycyl radical cofactor GrcA] [protein_id=YP_005238768.1] [location=... GRCA_SALTY - Autonomous glycyl radical cofactor OS=Salmonella typhimurium GN=grcA PE=3 SV=1 gi\|213857769 - gi\|213857769\|ref\|ZP_03384740.1\| autonomous glycyl radical cofactor GrcA [Salmonella enterica subsp. ... gi\|214000654 - gi\|214000654\|ref\|ZP_03411389.1\| autonomous glycyl radical cofactor GrcA [Salmonella enterica subsp. ... GRCA_SALPA - Autonomous glycyl radical cofactor OS=Salmonella paratyphi A GN=grcA PE=3 SV=1 GRCA_SALPC - Autonomous glycyl radical cofactor OS=Salmonella paratyphi C (strain RKS4594) GN=grcA PE=3 SV=1 GRCA_SALTI - Autonomous glycyl radical cofactor OS=Salmonella typhi GN=grcA PE=3 SV=1 gi\|213425265 - gi\|213425265\|ref\|ZP_03358015.1\| autonomous glycyl radical cofactor GrcA [Salmonella enterica subsp. ... gi\|213580320 - gi\|213580320\|ref\|ZP_03362146.1\| autonomous glycyl radical cofactor GrcA [Salmonella enterica subsp. ... gi\|213612388 - gi\|213612388\|ref\|ZP_03370214.1\| autonomous glycyl radical cofactor GrcA [Salmonella enterica subsp. ... gi\|213646342 - gi\|213646342\|ref\|ZP_03376395.1\| autonomous glycyl radical cofactor GrcA [Salmonella enterica subsp. ... GRCA_SALEP - Autonomous glycyl radical cofactor OS=Salmonella enteritidis PT4 (strain P125109) GN=grcA PE=3 SV=1 gi\|213021771 - gi\|213021771\|ref\|ZP_03336218.1\| autonomous glycyl radical cofactor GrcA [Salmonella enterica subsp. ... gi\|213161477 - gi\|213161477\|ref\|ZP_03347187.1\| autonomous glycyl radical cofactor GrcA [Salmonella enterica subsp. ... gi\|213420576 - gi\|213420576\|ref\|ZP_03353642.1\| autonomous glycyl radical cofactor GrcA [Salmonella enterica subsp. ... GRCA_SALPB - Autonomous glycyl radical cofactor OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7) GN=grcA P... GRCA_SALPB - Autonomous glycyl radical cofactor OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7) GN=grcA P... GRCA_SALCH - Autonomous glycyl radical cofactor OS=Salmonella choleraesuis GN=grcA PE=3 SV=1 GRCA_SALAR - Autonomous glycyl radical cofactor OS=Salmonella arizonae (strain ATCC BAA-731 / CDC346-86 / RSK2980... GRCA_SALCH - Autonomous glycyl radical cofactor OS=Salmonella choleraesuis (strain SC-B67) GN=grcA PE=3 SV=1 GRCA_SALPA - Autonomous glycyl radical cofactor OS=Salmonella paratyphi A (strain ATCC 9150 / SARB42) GN=grcA PE=... GRCA_SALTY - Autonomous glycyl radical cofactor OS=Salmonella typhimurium GN=grcA PE=3 SV=1 gi\|167553667, gi... - gi\|205321949\|gb\|EDZ09788.1\| autonomous glycyl radical cofactor [Salmonella enterica subsp. enterica ... gi\|205327356, gi... - gi\|205327356\|gb\|EDZ14120.1\| autonomous glycyl radical cofactor [Salmonella enterica subsp. enterica ... GRCA_SALCH - Autonomous glycyl radical cofactor OS=Salmonella choleraesuis GN=grcA PE=3 SV=1	197.0	[0..1]	[127..1]
GRCA_SHIFL - Autonomous glycyl radical cofactor OS=Shigella flexneri GN=grcA PE=3 SV=2 gi\|56383695, gi\|... - gi\|56480144\|ref\|NP_708430.2\| autonomous glycyl radical cofactor GrcA [Shigella flexneri 2a str. 301]... gi\|30063980, gi\|... - gi\|30063980\|ref\|NP_838151.1\| autonomous glycyl radical cofactor GrcA [Shigella flexneri 2a str. 2457...	197.0	[0..1]	[127..1]
GRCA_SHIDS - Autonomous glycyl radical cofactor OS=Shigella dysenteriae serotype 1 (strain Sd197) GN=grcA PE=3 SV...	196.0	[0..1]	[127..1]
gi\|25285925 - gi\|25285925\|pir\|\|C85904 probable formate acetyltransferase yfiD [imported] - Escherichia coli (strai... gi\|15803106, gi\|... - gi\|15803106\|ref\|NP_289137.1\| autonomous glycyl radical cofactor GrcA [Escherichia coli O157:H7 EDL93...	195.0	[0..1]	[127..1]
gi\|238788236, gi... - gi\|77974735\|ref\|ZP_00830274.1\| COG3445: Acid-induced glycyl radical enzyme [Yersinia frederiksenii A...	194.0	[0..1]	[127..1]
gi\|238784176, gi... - gi\|77958600\|ref\|ZP_00822631.1\| COG3445: Acid-induced glycyl radical enzyme [Yersinia bercovieri ATCC...	194.0	[0..1]	[127..1]
gi\|77963364, gi\|... - gi\|77963364\|ref\|ZP_00827174.1\| COG3445: Acid-induced glycyl radical enzyme [Yersinia mollaretii ATCC...	194.0	[0..1]	[127..1]

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Predicted Domain #1

Region A:
Residues: [1-127]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MITGIQITKA ANDDLLNSFW LLDSEKGEAR CIVAKAGYAE DEVVAVSKLG DIEYREVPVE  60
   61 VKPEVRVEGG QHLNVNVLRR ETLEDAVKHP EKYPQLTIRV SGYAVRFNSL TPEQQRDVIA 120
  121 RTFTESL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	33.69897
Match:	1h16A
Description:	Pyruvate formate-lyase, PFL
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
catalytic activity	1.55459871885306	bayes_pls_golite062009
oxidoreductase activity, acting on CH or CH2 groups, disulfide as acceptor	0.46730764989157	bayes_pls_golite062009
oxidoreductase activity, acting on CH or CH2 groups	0.453866191047343	bayes_pls_golite062009
oxidoreductase activity	0.428689336564751	bayes_pls_golite062009
ribonucleoside-diphosphate reductase activity	0.042444983124382	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: