YRC Public Data Repository - Protein Structure Prediction

Protein:	VSR_ECOLI
Organism:	Escherichia coli
Length:	156 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 VSR_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|75176955, gi\|... - gi\|75176955\|ref\|ZP_00697062.1\| COG3727: DNA G:T-mismatch repair endonuclease [Shigella boydii BS512]... gi\|74312498, gi\|... - gi\|74312498\|ref\|YP_310917.1\| DNA mismatch endonuclease [Shigella sonnei Ss046], gi\|73855975\|gb\|AAZ88... gi\|82543582, gi\|... - gi\|82543582\|ref\|YP_407529.1\| DNA mismatch endonuclease [Shigella boydii Sb227], gi\|81244993\|gb\|ABB65...	238.0	[0..1]	[156..1]
gi\|170019708, gi... - gi\|170019708\|ref\|YP_001724662.1\| DNA mismatch endonuclease Vsr [Escherichia coli ATCC 8739], gi\|1697... gi\|170683555, gi... - gi\|170683555\|ref\|YP_001743286.1\| very short patch repair protein [Escherichia coli SMS-3-5], gi\|1705... gi\|218352296, gi... - gi\|218695564\|ref\|YP_002403231.1\| DNA mismatch endonuclease of very short patch repair [Escherichia c... gi\|209919381, gi... - gi\|209919381\|ref\|YP_002293465.1\| DNA mismatch endonuclease [Escherichia coli SE11], gi\|209912640\|dbj... gi\|218361308, gi... - gi\|218554540\|ref\|YP_002387453.1\| DNA mismatch endonuclease of very short patch repair [Escherichia c... gi\|124532069, gi... - gi\|124532069\|ref\|ZP_01702083.1\| DNA mismatch endonuclease Vsr [Escherichia coli B], gi\|124498182\|gb\|... gi\|193066641, gi... - gi\|75255232\|ref\|ZP_00727080.1\| COG3727: DNA G:T-mismatch repair endonuclease [Escherichia coli E22],... gi\|194439577, gi... - gi\|83585006\|ref\|ZP_00923660.1\| COG3727: DNA G:T-mismatch repair endonuclease [Escherichia coli 101-1... gi\|194418097, gi... - gi\|83569510\|ref\|ZP_00920962.1\| COG3727: DNA G:T-mismatch repair endonuclease [Shigella dysenteriae 1...	237.0	[0..1]	[156..1]
gi\|157067109, gi... - gi\|75196016\|ref\|ZP_00706086.1\| COG3727: DNA G:T-mismatch repair endonuclease [Escherichia coli HS], ...	237.0	[0..1]	[156..1]
gi\|188491539, gi... - gi\|75511424\|ref\|ZP_00734099.1\| COG3727: DNA G:T-mismatch repair endonuclease [Escherichia coli 53638... gi\|192955370, gi... - gi\|75215147\|ref\|ZP_00713595.1\| COG3727: DNA G:T-mismatch repair endonuclease [Escherichia coli E1100...	236.0	[0..1]	[156..1]
gi\|13362166, gi\|... - gi\|15831952\|ref\|NP_310725.1\| DNA mismatch endonuclease [Escherichia coli O157:H7], gi\|13362166\|dbj\|B... gi\|209766686, gi... - pir\|\|B90966 DNA mismatch endonuclease Vsr [imported] - Escherichia coli (strain O157:H7, substrain ... gi\|12516069, gi\|... - gi\|15802394\|ref\|NP_288420.1\| DNA mismatch endonuclease, patch repair protein [Escherichia coli O157:... gi\|208724748, gi... - gi\|208810232\|ref\|ZP_03252108.1\| very short patch repair protein [Escherichia coli O157:H7 str. EC420... gi\|195939266 - gi\|195939266\|ref\|ZP_03084648.1\| DNA mismatch endonuclease [Escherichia coli O157:H7 str. EC4024] gi\|168801736, gi... - gi\|189376125\|gb\|EDU94541.1\| very short patch repair protein [Escherichia coli O157:H7 str. EC508], g... gi\|189371033, gi... - gi\|189371033\|gb\|EDU89449.1\| very short patch repair protein [Escherichia coli O157:H7 str. EC869], g... gi\|217328920, gi... - gi\|217328920\|ref\|ZP_03445001.1\| very short patch repair protein [Escherichia coli O157:H7 str. TW145... gi\|209161072, gi... - gi\|209399672\|ref\|YP_002271075.1\| very short patch repair protein [Escherichia coli O157:H7 str. EC41... gi\|208821707, gi... - gi\|208821707\|ref\|ZP_03262027.1\| very short patch repair protein [Escherichia coli O157:H7 str. EC404... gi\|208816970, gi... - gi\|208816970\|ref\|ZP_03258090.1\| very short patch repair protein [Escherichia coli O157:H7 str. EC404... gi\|168758274, gi... - gi\|189354910\|gb\|EDU73329.1\| very short patch repair protein [Escherichia coli O157:H7 str. EC4401], ... gi\|188013890, gi... - gi\|188013890\|gb\|EDU52012.1\| very short patch repair protein [Escherichia coli O157:H7 str. EC4113], ... gi\|13362166, gi\|... - gi\|15831952\|ref\|NP_310725.1\| DNA mismatch endonuclease [Escherichia coli O157:H7 str. Sakai], gi\|133... gi\|254593010, gi... - gi\|254793610\|ref\|YP_003078447.1\| DNA mismatch endonuclease of very short patch repair [Escherichia c... gi\|188999322, gi... - gi\|188999322\|gb\|EDU68308.1\| very short patch repair protein [Escherichia coli O157:H7 str. EC4076], ... gi\|168777716, gi... - gi\|187767099\|gb\|EDU30943.1\| very short patch repair protein [Escherichia coli O157:H7 str. EC4196], ... gi\|189359655, gi... - gi\|189359655\|gb\|EDU78074.1\| very short patch repair protein [Escherichia coli O157:H7 str. EC4486], ... gi\|189364945, gi... - gi\|189364945\|gb\|EDU83361.1\| very short patch repair protein [Escherichia coli O157:H7 str. EC4501], ...	236.0	[0..1]	[156..1]
gi\|82776353, gi\|... - gi\|82776353\|ref\|YP_402702.1\| DNA mismatch endonuclease, patch repair protein [Shigella dysenteriae S...	235.0	[0..1]	[156..1]
gi\|191169245, gi... - gi\|75227470\|ref\|ZP_00714237.1\| COG3727: DNA G:T-mismatch repair endonuclease [Escherichia coli B7A],... gi\|194430439, gi... - gi\|75208271\|ref\|ZP_00708628.1\| COG3727: DNA G:T-mismatch repair endonuclease [Escherichia coli B171]... gi\|157078190, gi... - gi\|75190977\|ref\|ZP_00704244.1\| COG3727: DNA G:T-mismatch repair endonuclease [Escherichia coli E2437...	235.0	[0..1]	[156..1]
gi\|26248231, gi\|... - gi\|26248231\|ref\|NP_754271.1\| very short patch repair protein [Escherichia coli CFT073], gi\|26108635\|... gi\|227885612, gi... - gi\|227885612\|ref\|ZP_04003417.1\| DNA mismatch endonuclease Vsr of very short patch repair [Escherichi... gi\|237705919, gi... - gi\|237705919\|ref\|ZP_04536400.1\| very short patch repair protein [Escherichia sp. 3_2_53FAA], gi\|2269...	235.0	[0..1]	[156..1]
gi\|88699581, gi\|... - gi\|88706187\|ref\|ZP_01103894.1\| DNA mismatch endonuclease vsr [gamma proteobacterium KT 71], gi\|88699...	234.0	[0..1]	[149..1]
gi\|218558816, gi... - gi\|218558816\|ref\|YP_002391729.1\| DNA mismatch endonuclease of very short patch repair [Escherichia c... gi\|110642065, gi... - gi\|110642065\|ref\|YP_669795.1\| very short patch repair protein [Escherichia coli 536], gi\|110343657\|g... gi\|218369465, gi... - gi\|218699479\|ref\|YP_002407108.1\| DNA mismatch endonuclease of very short patch repair [Escherichia c... gi\|91072753, gi\|... - gi\|91211179\|ref\|YP_541165.1\| DNA mismatch endonuclease, patch repair protein [Escherichia coli UTI89... gi\|191173267, gi... - gi\|75239147\|ref\|ZP_00723124.1\| COG3727: DNA G:T-mismatch repair endonuclease [Escherichia coli F11],... gi\|115513222, gi... - gi\|117624098\|ref\|YP_853011.1\| DNA mismatch endonuclease, patch repair protein [Escherichia coli APEC...	234.0	[0..1]	[156..1]

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Predicted Domain #1

Region A:
Residues: [1-156]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MADVHDKATR SKNMRAIATR DTAIEKRLAS LLTGQGLAFR VQDASLPGRP DFVVDEYRCV  60
   61 IFTHGCFWHH HHCYLFKVPA TRTEFWLEKI GKNVERDRRD ISRLQELGWR VLIVWECALR 120
  121 GREKLTDEAL TERLEEWICG EGASAQIDTQ GIHLLA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	61.69897
Match:	1cw0A
Description:	Very short patch repair (VSR) endonuclease
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
deoxyribonuclease activity	2.38833494621917	bayes_pls_golite062009
endodeoxyribonuclease activity	2.33372429725567	bayes_pls_golite062009
single-stranded DNA specific endodeoxyribonuclease activity	2.14055367547547	bayes_pls_golite062009
single-stranded DNA binding	1.24151591082448	bayes_pls_golite062009
catalytic activity	1.18688703641003	bayes_pls_golite062009
structure-specific DNA binding	1.14196734165465	bayes_pls_golite062009
nuclease activity	0.90252859343276	bayes_pls_golite062009
endonuclease activity	0.87027578644028	bayes_pls_golite062009
hydrolase activity, acting on ester bonds	0.70849567386272	bayes_pls_golite062009
hydrolase activity	0.7029472543514	bayes_pls_golite062009
damaged DNA binding	0.56396532051994	bayes_pls_golite062009
binding	0.240779272133325	bayes_pls_golite062009
DNA binding	0.0778795682272901	bayes_pls_golite062009
nucleic acid binding	0.051221107975965	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: