YRC Public Data Repository - Protein Structure Prediction

Protein:	RECO_ECOLI
Organism:	Escherichia coli
Length:	242 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 RECO_ECOLI.

Description	E-value	Query Range	Subject Range
RECO_ECOLU - DNA repair protein RecO OS=Escherichia coli O17:K52:H18 (strain UMN026 / ExPEC) GN=recO PE=3 SV=1 RECO_ECOSM - DNA repair protein RecO OS=Escherichia coli (strain SMS-3-5 / SECEC) GN=recO PE=3 SV=1 RECO_ECOSE - DNA repair protein RecO OS=Escherichia coli (strain SE11) GN=recO PE=3 SV=1 gi\|218696193, gi... - gi\|218696193\|ref\|YP_002403860.1\| DNA repair protein RecO [Escherichia coli 55989], gi\|218352925\|emb\|... RECO_ECO7I - DNA repair protein RecO OS=Escherichia coli O7:K1 (strain IAI39 / ExPEC) GN=recO PE=3 SV=1 RECO_ESCF3 - DNA repair protein RecO OS=Escherichia fergusonii (strain ATCC 35469 / DSM 13698 / CDC 0568-73) GN=r... RECO_ECO8A - DNA repair protein RecO OS=Escherichia coli O8 (strain IAI1) GN=recO PE=3 SV=1 gi\|194429295, gi... - gi\|75209489\|ref\|ZP_00709714.1\| COG1381: Recombinational DNA repair protein (RecF pathway) [Escherich... RECO_ECOHS - DNA repair protein RecO OS=Escherichia coli O9:H4 (strain HS) GN=recO PE=3 SV=1 RECO_ECO24 - DNA repair protein RecO OS=Escherichia coli O139:H28 (strain E24377A / ETEC) GN=recO PE=3 SV=1 gi\|83570801, gi\|... - gi\|83570801\|ref\|ZP_00922244.1\| COG1381: Recombinational DNA repair protein (RecF pathway) [Shigella ... RECO_SHISS - DNA repair protein RecO OS=Shigella sonnei (strain Ss046) GN=recO PE=3 SV=1 gi\|75257989, gi\|... - gi\|75257989\|ref\|ZP_00729463.1\| COG1381: Recombinational DNA repair protein (RecF pathway) [Escherich... gi\|75237689, gi\|... - gi\|75237689\|ref\|ZP_00721705.1\| COG1381: Recombinational DNA repair protein (RecF pathway) [Escherich... gi\|75228860, gi\|... - gi\|75228860\|ref\|ZP_00715461.1\| COG1381: Recombinational DNA repair protein (RecF pathway) [Escherich...	255.0	[0..1]	[242..1]
RECO_SHIFL - DNA repair protein RecO OS=Shigella flexneri GN=recO PE=3 SV=1 gi\|24053008, gi\|... - gi\|24113907\|ref\|NP_708417.1\| DNA repair protein RecO [Shigella flexneri 2a str. 301], gi\|24053008\|gb... gi\|30042223, gi\|... - gi\|30063967\|ref\|NP_838138.1\| DNA repair protein RecO [Shigella flexneri 2a str. 2457T], gi\|30042223\|...	255.0	[0..1]	[242..1]
RECO_SHIF8 - DNA repair protein RecO OS=Shigella flexneri serotype 5b (strain 8401) GN=recO PE=3 SV=1	255.0	[0..1]	[242..1]
RECO_SHIB3 - DNA repair protein RecO OS=Shigella boydii serotype 18 (strain CDC 3083-94 / BS512) GN=recO PE=3 SV=... RECO_SHIBS - DNA repair protein RecO OS=Shigella boydii serotype 4 (strain Sb227) GN=recO PE=3 SV=1	253.0	[0..1]	[242..1]
gi\|1033154\|gb\|AA... - CG Site No. 17962 gi\|1033154 - gi\|1033154\|gb\|AAA79827.1\| CG Site No. 17962	252.0	[0..1]	[242..1]
gi\|254230526, gi... - gi\|75854068\|ref\|ZP_00761788.1\| COG1381: Recombinational DNA repair protein (RecF pathway) [Vibrio sp...	249.0	[0..2]	[237..7]
RECO_VIBPA - DNA repair protein RecO OS=Vibrio parahaemolyticus serotype O3:K6 (strain RIMD 2210633) GN=recO PE=3... RECO_VIBPA - DNA repair protein recO OS=Vibrio parahaemolyticus GN=recO PE=3 SV=1	248.0	[0..5]	[237..10]
RECO_SALTY - DNA repair protein recO OS=Salmonella typhimurium GN=recO PE=3 SV=1 RECO_SALCH - DNA repair protein recO OS=Salmonella choleraesuis GN=recO PE=3 SV=1 RECO_SALTY - DNA repair protein recO OS=Salmonella typhimurium GN=recO PE=3 SV=1 lcl\|NC_016856.1_... - [gene=recO] [protein=DNA repair protein RecO] [protein_id=YP_005238686.1] [location=complement(27747... gi\|205325288, gi... - gi\|205325288\|gb\|EDZ13127.1\| DNA repair protein RecO [Salmonella enterica subsp. enterica serovar Sai... gi\|167992710, gi... - gi\|205329107\|gb\|EDZ15871.1\| DNA repair protein RecO [Salmonella enterica subsp. enterica serovar 4,[... gi\|205337667, gi... - gi\|205337667\|gb\|EDZ24431.1\| DNA repair protein RecO [Salmonella enterica subsp. enterica serovar Hei... RECO_SALCH - DNA repair protein RecO OS=Salmonella choleraesuis (strain SC-B67) GN=recO PE=3 SV=1 RECO_SALPA - DNA repair protein RecO OS=Salmonella paratyphi A (strain ATCC 9150 / SARB42) GN=recO PE=3 SV=1 RECO_SALPB - DNA repair protein RecO OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7) GN=recO PE=3 SV=1 gi\|213646355 - gi\|213646355\|ref\|ZP_03376408.1\| DNA repair protein RecO [Salmonella enterica subsp. enterica serovar... gi\|213974327 - gi\|213974327\|ref\|ZP_03401586.1\| DNA repair protein RecO [Salmonella enterica subsp. enterica serovar... RECO_SALPB - DNA repair protein recO OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7) GN=recO PE=3 SV=1 gi\|214000668 - gi\|214000668\|ref\|ZP_03411403.1\| DNA repair protein RecO [Salmonella enterica subsp. enterica serovar... gi\|224582879, gi... - gi\|224582879\|ref\|YP_002636677.1\| DNA repair protein RecO [Salmonella enterica subsp. enterica serova... RECO_SALTI - DNA repair protein RecO OS=Salmonella typhi GN=recO PE=3 SV=1 RECO_SALPK - DNA repair protein RecO OS=Salmonella paratyphi A (strain AKU_12601) GN=recO PE=3 SV=1 RECO_SALTY - DNA repair protein RecO OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=recO PE=3... gi\|204321446, gi... - gi\|204929727\|ref\|ZP_03220801.1\| DNA repair protein RecO [Salmonella enterica subsp. enterica serovar... gi\|213425278 - gi\|213425278\|ref\|ZP_03358028.1\| DNA repair protein RecO [Salmonella enterica subsp. enterica serovar... RECO_SALTI - DNA repair protein recO OS=Salmonella typhi GN=recO PE=3 SV=1 gi\|213583125 - gi\|213583125\|ref\|ZP_03364951.1\| DNA repair protein RecO [Salmonella enterica subsp. enterica serovar... RECO_SALNS - DNA repair protein RecO OS=Salmonella newport (strain SL254) GN=recO PE=3 SV=1 RECO_SALHS - DNA repair protein RecO OS=Salmonella heidelberg (strain SL476) GN=recO PE=3 SV=1 gi\|29136437, gi\|... - gi\|29140812\|ref\|NP_804154.1\| DNA repair protein RecO [Salmonella enterica subsp. enterica serovar Ty... RECO_SALA4 - DNA repair protein RecO OS=Salmonella agona (strain SL483) GN=recO PE=3 SV=1 gi\|16761491 - gi\|16761491\|ref\|NP_457108.1\| DNA repair protein RecO [Salmonella enterica subsp. enterica serovar Ty... gi\|197243788, gi... - gi\|197265533\|ref\|ZP_03165607.1\| DNA repair protein RecO [Salmonella enterica subsp. enterica serovar... RECO_SALPA - DNA repair protein recO OS=Salmonella paratyphi A GN=recO PE=3 SV=1 gi\|238912697 - gi\|238912697\|ref\|ZP_04656534.1\| DNA repair protein RecO [Salmonella enterica subsp. enterica serovar... RECO_SALCH - DNA repair protein recO OS=Salmonella choleraesuis GN=recO PE=3 SV=1	248.0	[0..1]	[239..1]
gi\|22125199, gi\|... - gi\|22125199\|ref\|NP_668622.1\| DNA repair protein RecO [Yersinia pestis KIM], gi\|21958064\|gb\|AAM84873.... gi\|45442306, gi\|... - gi\|45442306\|ref\|NP_993845.1\| DNA repair protein RecO [Yersinia pestis biovar Microtus str. 91001], g...	244.0	[0..1]	[237..3]
RECO_YERPP - DNA repair protein RecO OS=Yersinia pestis (strain Pestoides F) GN=recO PE=3 SV=1 gi\|149365388, gi... - gi\|149365388\|ref\|ZP_01887423.1\| DNA repair protein [Yersinia pestis CA88-4125], gi\|149291801\|gb\|EDM4... gi\|161484839 - gi\|161484839\|ref\|NP_668622.2\| DNA repair protein RecO [Yersinia pestis KIM] RECO_YERPY - DNA repair protein RecO OS=Yersinia pseudotuberculosis serotype O:3 (strain YPIII) GN=recO PE=3 SV=1 RECO_YERPG - DNA repair protein RecO OS=Yersinia pestis bv. Antiqua (strain Angola) GN=recO PE=3 SV=1 RECO_YERPB - DNA repair protein RecO OS=Yersinia pseudotuberculosis serotype IB (strain PB1/+) GN=recO PE=3 SV=1 gi\|16122924, gi\|... - gi\|218929792\|ref\|YP_002347667.1\| DNA repair protein RecO [Yersinia pestis CO92], gi\|16122924\|ref\|NP_... RECO_YERP3 - DNA repair protein RecO OS=Yersinia pseudotuberculosis serotype O:1b (strain IP 31758) GN=recO PE=3 ... RECO_YERPS - DNA repair protein RecO OS=Yersinia pseudotuberculosis serotype I (strain IP32953) GN=recO PE=3 SV=1 gi\|161511351 - gi\|161511351\|ref\|NP_993845.2\| DNA repair protein RecO [Yersinia pestis biovar Microtus str. 91001] gi\|165925301, gi... - gi\|165925301\|ref\|ZP_02221133.1\| DNA repair protein RecO [Yersinia pestis biovar Orientalis str. F199... gi\|165992625, gi... - gi\|166008243\|ref\|ZP_02229141.1\| DNA repair protein RecO [Yersinia pestis biovar Antiqua str. E197900... gi\|166212406, gi... - gi\|166212406\|ref\|ZP_02238441.1\| DNA repair protein RecO [Yersinia pestis biovar Antiqua str. B420030... gi\|167399560, gi... - gi\|167399560\|ref\|ZP_02305084.1\| DNA repair protein RecO [Yersinia pestis biovar Antiqua str. UG05-04... gi\|167421237, gi... - gi\|167421237\|ref\|ZP_02312990.1\| DNA repair protein RecO [Yersinia pestis biovar Orientalis str. MG05... gi\|167423802, gi... - gi\|167423802\|ref\|ZP_02315555.1\| DNA repair protein RecO [Yersinia pestis biovar Mediaevalis str. K19... gi\|167467392 - gi\|167467392\|ref\|ZP_02332096.1\| DNA repair protein RecO [Yersinia pestis FV-1] RECO_YERPE - DNA repair protein RecO OS=Yersinia pestis GN=recO PE=3 SV=1 RECO_YERPS - DNA repair protein recO OS=Yersinia pseudotuberculosis GN=recO PE=3 SV=1 RECO_YERPA - DNA repair protein RecO OS=Yersinia pestis bv. Antiqua (strain Antiqua) GN=recO PE=3 SV=1 RECO_YERPN - DNA repair protein RecO OS=Yersinia pestis bv. Antiqua (strain Nepal516) GN=recO PE=3 SV=1 gi\|89101407, gi\|... - gi\|89101407\|ref\|ZP_01174179.1\| COG1381: Recombinational DNA repair protein (RecF pathway) [Yersinia ... gi\|229898847, gi... - gi\|229898847\|ref\|ZP_04513992.1\| gap repair protein [Yersinia pestis biovar Orientalis str. India 195... gi\|229701327, gi... - gi\|229895521\|ref\|ZP_04510692.1\| gap repair protein [Yersinia pestis Pestoides A], gi\|229701327\|gb\|EE... gi\|229838283, gi... - gi\|229838283\|ref\|ZP_04458442.1\| gap repair protein [Yersinia pestis biovar Orientalis str. PEXU2], g...	243.0	[0..1]	[237..1]

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Predicted Domain #1

Region A:
Residues: [1-242]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MEGWQRAFVL HSRPWSETSL MLDVFTEESG RVRLVAKGAR SKRSTLKGAL QPFTPLLLRF  60
   61 GGRGEVKTLR SAEAVSLALP LSGITLYSGL YINELLSRVL EYETRFSELF FDYLHCIQSL 120
  121 AGVTGTPEPA LRRFELALLG HLGYGVNFTH CAGSGEPVDD TMTYRYREEK GFIASVVIDN 180
  181 KTFTGRQLKA LNAREFPDAD TLRAAKRFTR MALKPYLGGK PLKSRELFRQ FMPKRTVKTH 240
  241 YE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	22.154902
Match:	1u5kA
Description:	Recombinational repair protein RecO
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
single-stranded DNA binding	1.38758756313423	bayes_pls_golite062009
structure-specific DNA binding	1.30327082958682	bayes_pls_golite062009
nucleic acid binding	1.25013691443586	bayes_pls_golite062009
DNA binding	0.63501501302969	bayes_pls_golite062009
binding	0.588257300348437	bayes_pls_golite062009
protein binding	0.171510616224582	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: