YRC Public Data Repository - Protein Structure Prediction

Protein:	EX3_ECOLI
Organism:	Escherichia coli
Length:	268 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 EX3_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|83569646 - gi\|83569646\|ref\|ZP_00921097.1\| COG0708: Exonuclease III [Shigella dysenteriae 1012]	265.0	[0..1]	[268..5]
gi\|91210966, gi\|... - gi\|91210966\|ref\|YP_540952.1\| exodeoxyribonuclease III [Escherichia coli UTI89], gi\|91072540\|gb\|ABE07... gi\|237705700, gi... - gi\|237705700\|ref\|ZP_04536181.1\| exonuclease III [Escherichia sp. 3_2_53FAA], gi\|226900457\|gb\|EEH8671... gi\|115513045, gi... - gi\|117623921\|ref\|YP_852834.1\| exonuclease III [Escherichia coli APEC O1], gi\|115513045\|gb\|ABJ01120.1...	265.0	[0..1]	[268..5]
gi\|26108407, gi\|... - gi\|26248004\|ref\|NP_754044.1\| Exodeoxyribonuclease III [Escherichia coli CFT073], gi\|26108407\|gb\|AAN8... gi\|227837398, gi... - gi\|227885825\|ref\|ZP_04003630.1\| exodeoxyribonuclease III [Escherichia coli 83972], gi\|227837398\|gb\|E...	265.0	[0..1]	[268..5]
gi\|168770517, gi... - gi\|189360591\|gb\|EDU79010.1\| exodeoxyribonuclease III [Escherichia coli O157:H7 str. EC4486], gi\|1687... gi\|168774945, gi... - gi\|187769420\|gb\|EDU33264.1\| exodeoxyribonuclease III [Escherichia coli O157:H7 str. EC4196], gi\|1687... gi\|168782171, gi... - gi\|189000291\|gb\|EDU69277.1\| exodeoxyribonuclease III [Escherichia coli O157:H7 str. EC4076], gi\|1687... gi\|189372068, gi... - gi\|189372068\|gb\|EDU90484.1\| exodeoxyribonuclease III [Escherichia coli O157:H7 str. EC869], gi\|16878... gi\|188016211, gi... - gi\|188016211\|gb\|EDU54333.1\| exodeoxyribonuclease III [Escherichia coli O157:H7 str. EC4113], gi\|1687... gi\|13361922, gi\|... - gi\|15831709\|ref\|NP_310482.1\| exonuclease III [Escherichia coli O157:H7 str. Sakai], gi\|13361922\|dbj\|... gi\|168756758, gi... - gi\|189356216\|gb\|EDU74635.1\| exodeoxyribonuclease III [Escherichia coli O157:H7 str. EC4401], gi\|1687... gi\|168762180, gi... - gi\|189367497\|gb\|EDU85913.1\| exodeoxyribonuclease III [Escherichia coli O157:H7 str. EC4501], gi\|1687... gi\|13361922, gi\|... - gi\|15831709\|ref\|NP_310482.1\| exonuclease III [Escherichia coli O157:H7], gi\|13361922\|dbj\|BAB35878.1\|... gi\|209768548, gi... - pir\|\|C85784 exonuclease III [imported] - Escherichia coli (strain O157:H7, substrain EDL933), pir\|\|... gi\|12515771, gi\|... - gi\|15802160\|ref\|NP_288182.1\| exonuclease III [Escherichia coli O157:H7 EDL933], gi\|12515771\|gb\|AAG56... gi\|254592767, gi... - gi\|254793367\|ref\|YP_003078204.1\| exonuclease III [Escherichia coli O157:H7 str. TW14359], gi\|2545927... gi\|208821646, gi... - gi\|208821646\|ref\|ZP_03261966.1\| exodeoxyribonuclease III [Escherichia coli O157:H7 str. EC4042], gi\|... gi\|209157334, gi... - gi\|209395934\|ref\|YP_002270819.1\| exodeoxyribonuclease III [Escherichia coli O157:H7 str. EC4115], gi... gi\|217317951, gi... - gi\|217328604\|ref\|ZP_03444685.1\| exodeoxyribonuclease III [Escherichia coli O157:H7 str. TW14588], gi... gi\|168800064, gi... - gi\|189377552\|gb\|EDU95968.1\| exodeoxyribonuclease III [Escherichia coli O157:H7 str. EC508], gi\|16880... gi\|195937435 - gi\|195937435\|ref\|ZP_03082817.1\| exonuclease III [Escherichia coli O157:H7 str. EC4024] gi\|208725286, gi... - gi\|208810770\|ref\|ZP_03252646.1\| exodeoxyribonuclease III [Escherichia coli O157:H7 str. EC4206], gi\|... gi\|208816750, gi... - gi\|208816750\|ref\|ZP_03257870.1\| exodeoxyribonuclease III [Escherichia coli O157:H7 str. EC4045], gi\|...	264.0	[0..1]	[268..1]
gi\|110343461, gi... - gi\|110641869\|ref\|YP_669599.1\| exonuclease III [Escherichia coli 536], gi\|110343461\|gb\|ABG69698.1\| ex... gi\|75241376 - gi\|75241376\|ref\|ZP_00725227.1\| COG0708: Exonuclease III [Escherichia coli F11]	263.0	[0..1]	[268..5]
gi\|75256151 - gi\|75256151\|ref\|ZP_00727847.1\| COG0708: Exonuclease III [Escherichia coli E22] gi\|75236782 - gi\|75236782\|ref\|ZP_00720853.1\| COG0708: Exonuclease III [Escherichia coli E110019] gi\|75227692 - gi\|75227692\|ref\|ZP_00714431.1\| COG0708: Exonuclease III [Escherichia coli B7A] gi\|75210236 - gi\|75210236\|ref\|ZP_00710404.1\| COG0708: Exonuclease III [Escherichia coli B171] gi\|75195819 - gi\|75195819\|ref\|ZP_00705889.1\| COG0708: Exonuclease III [Escherichia coli HS] gi\|75190782 - gi\|75190782\|ref\|ZP_00704049.1\| COG0708: Exonuclease III [Escherichia coli E24377A] gi\|170019904, gi... - gi\|170019904\|ref\|YP_001724858.1\| exonuclease III [Escherichia coli ATCC 8739], gi\|169754832\|gb\|ACA77... gi\|75177326 - gi\|75177326\|ref\|ZP_00697415.1\| COG0708: Exonuclease III [Shigella boydii BS512] gi\|83586048 - gi\|83586048\|ref\|ZP_00924686.1\| COG0708: Exonuclease III [Escherichia coli 101-1] gi\|253324340, gi... - gi\|253773296\|ref\|YP_003036127.1\| exodeoxyribonuclease III [Escherichia coli BL21(DE3)], gi\|253324340... gi\|124499524, gi... - gi\|124529971\|ref\|ZP_01700783.1\| exodeoxyribonuclease III [Escherichia coli B], gi\|124499524\|gb\|EAY47... gi\|75513755 - gi\|75513755\|ref\|ZP_00736131.1\| COG0708: Exonuclease III [Escherichia coli 53638]	262.0	[0..1]	[268..5]
gi\|30041235, gi\|... - gi\|30062986\|ref\|NP_837157.1\| exonuclease III [Shigella flexneri 2a str. 2457T], gi\|30041235\|gb\|AAP16...	261.0	[0..1]	[268..1]
gi\|56383461, gi\|... - gi\|56479910\|ref\|NP_707364.2\| exonuclease III [Shigella flexneri 2a str. 301], gi\|56383461\|gb\|AAN4307...	261.0	[0..1]	[268..1]
gi\|110614993, gi... - gi\|110805445\|ref\|YP_688965.1\| exonuclease III [Shigella flexneri 5 str. 8401], gi\|110614993\|gb\|ABF03...	260.0	[0..1]	[268..1]
gi\|82776806, gi\|... - gi\|82776806\|ref\|YP_403155.1\| exonuclease III [Shigella dysenteriae Sd197], gi\|81240954\|gb\|ABB61664.1...	260.0	[0..1]	[268..1]

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Predicted Domain #1

Region A:
Residues: [1-268]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MKFVSFNING LRARPHQLEA IVEKHQPDVI GLQETKVHDD MFPLEEVAKL GYNVFYHGQK  60
   61 GHYGVALLTK ETPIAVRRGF PGDDEEAQRR IIMAEIPSLL GNVTVINGYF PQGESRDHPI 120
  121 KFPAKAQFYQ NLQNYLETEL KRDNPVLIMG DMNISPTDLD IGIGEENRKR WLRTGKCSFL 180
  181 PEEREWMDRL MSWGLVDTFR HANPQTADRF SWFDYRSKGF DDNRGLRIDL LLASQPLAEC 240
  241 CVETGIDYEI RSMEKPSDHA PVWATFRR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	69.69897
Match:	1akoA
Description:	EXONUCLEASE III FROM ESCHERICHIA COLI
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
catalytic activity	2.13555370693179	bayes_pls_golite062009
deoxyribonuclease activity	2.05523724828257	bayes_pls_golite062009
hydrolase activity, acting on ester bonds	2.05365635018354	bayes_pls_golite062009
hydrolase activity	1.91655065797595	bayes_pls_golite062009
exodeoxyribonuclease III activity	1.85973954222311	bayes_pls_golite062009
exodeoxyribonuclease activity	1.51772448052387	bayes_pls_golite062009
exodeoxyribonuclease activity, producing 5'-phosphomonoesters	1.51551179681369	bayes_pls_golite062009
exonuclease activity	1.21933709871113	bayes_pls_golite062009
exonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters	1.16071290518269	bayes_pls_golite062009
nuclease activity	0.48571734782839	bayes_pls_golite062009
binding	0.406311100383162	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: