YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24374562, gi\|...
Organism:	Shewanella oneidensis MR-1
Length:	270 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 gi|24374562, gi|....

Description	E-value	Query Range	Subject Range
gi\|95110198, gi\|... - gi\|95110198\|emb\|CAK14905.1\| exonuclease III [Pseudomonas entomophila L48], gi\|104781211\|ref\|YP_60770... gi\|95110198 - gi\|95110198\|emb\|CAK14905.1\| exonuclease III [Pseudomonas entomophila L48]	256.0	[0..1]	[267..1]
gi\|9656389, gi\|1... - gi\|9656389\|gb\|AAF95008.1\| exodeoxyribonuclease III [Vibrio cholerae O1 biovar El Tor str. N16961], g... gi\|11263275 - pir\|\|G82148 exodeoxyribonuclease III VC1860 [imported] - Vibrio cholerae (strain N16961 serogroup O1... gi\|121587322, gi... - gi\|121587322\|ref\|ZP_01677094.1\| exodeoxyribonuclease III [Vibrio cholerae 2740-80], gi\|121548482\|gb\|... gi\|254848946, gi... - gi\|254848946\|ref\|ZP_05238296.1\| exonuclease III [Vibrio cholerae MO10], gi\|254844651\|gb\|EET23065.1\| ... gi\|153222976, gi... - gi\|153222976\|ref\|ZP_01953566.1\| exodeoxyribonuclease III [Vibrio cholerae MAK 757], gi\|124118477\|gb\|... gi\|227081989, gi... - gi\|227081989\|ref\|YP_002810540.1\| exodeoxyribonuclease III [Vibrio cholerae M66-2], gi\|227009877\|gb\|A... gi\|153820118, gi... - gi\|153820118\|ref\|ZP_01972785.1\| exodeoxyribonuclease III [Vibrio cholerae NCTC 8457], gi\|126509336\|g... gi\|147674047, gi... - gi\|227118308\|ref\|YP_002820204.1\| exodeoxyribonuclease III [Vibrio cholerae O395], gi\|227013758\|gb\|AC... gi\|229343545, gi... - gi\|229518856\|ref\|ZP_04408299.1\| exodeoxyribonuclease III [Vibrio cholerae RC9], gi\|229343545\|gb\|EEO0... gi\|229607590, gi... - gi\|229607590\|ref\|YP_002878238.1\| exodeoxyribonuclease III [Vibrio cholerae MJ-1236], gi\|229370245\|gb... gi\|229508043, gi... - gi\|229508043\|ref\|ZP_04397548.1\| exodeoxyribonuclease III [Vibrio cholerae BX 330286], gi\|229355548\|g... gi\|229511718, gi... - gi\|229511718\|ref\|ZP_04401197.1\| exodeoxyribonuclease III [Vibrio cholerae B33], gi\|229351683\|gb\|EEO1...	255.0	[0..1]	[268..1]
gi\|27365439, gi\|... - gi\|27365439\|ref\|NP_760967.1\| exonuclease III [Vibrio vulnificus CMCP6], gi\|27361587\|gb\|AAO10494.1\|AE...	255.0	[0..1]	[268..1]
gi\|83569646 - gi\|83569646\|ref\|ZP_00921097.1\| COG0708: Exonuclease III [Shigella dysenteriae 1012]	255.0	[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...	255.0	[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...	255.0	[0..1]	[268..5]
gi\|84375616, gi\|... - gi\|84393754\|ref\|ZP_00992502.1\| exodeoxyribonuclease III [Vibrio splendidus 12B01], gi\|84375616\|gb\|EA...	254.0	[0..1]	[268..1]
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\|...	254.0	[0..1]	[268..1]
gi\|37680518, gi\|... - gi\|37680518\|ref\|NP_935127.1\| exonuclease III [Vibrio vulnificus YJ016], gi\|37199266\|dbj\|BAC95098.1\| ...	254.0	[0..1]	[268..1]
gi\|91225244, gi\|... - gi\|91225244\|ref\|ZP_01260412.1\| exodeoxyribonuclease III [Vibrio alginolyticus 12G01], gi\|91189883\|gb...	254.0	[0..1]	[268..1]

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Predicted Domain #1

Region A:
Residues: [1-270]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MKIVSFNING LRSRLHQLQA LIDSHQPDII GLQETKVHDE AFPLAEVEAM GYHVHYHGGK  60
   61 AHYGVAMLSK VAPLKVQKGF ATDEEDAQRR MIIGTFAQAN GRPLTVLNGY FPQGESIDHP 120
  121 TKYPAKRKFY QDLMAHLHAN HSNDEDIAII GDINISPIDL DIGIGEVNRK RWLKTGKCSF 180
  181 QPEEREWLKT LQDWGLVDTF RQLHPDRSER YSWFDYRSKG FDDNRGLRID VILATPSLAA 240
  241 RLVESDVDYE LRGIDKPSDH APIWSTFKEA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	67.0
Match:	1akoA
Description:	EXONUCLEASE III FROM ESCHERICHIA COLI
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
deoxyribonuclease activity	3.12154377354218	bayes_pls_golite062009
exonuclease activity	2.70644978530491	bayes_pls_golite062009
transcription regulator activity	2.37867140645121	bayes_pls_golite062009
hydrolase activity, acting on ester bonds	2.36841783202726	bayes_pls_golite062009
exonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters	2.28194662430307	bayes_pls_golite062009
exodeoxyribonuclease activity, producing 5'-phosphomonoesters	2.1488318821651	bayes_pls_golite062009
exodeoxyribonuclease activity	2.14106787613836	bayes_pls_golite062009
DNA binding	2.13723924806674	bayes_pls_golite062009
nucleic acid binding	1.96001164690544	bayes_pls_golite062009
nuclease activity	1.78432551160775	bayes_pls_golite062009
catalytic activity	1.76511376991978	bayes_pls_golite062009
binding	1.74593496417303	bayes_pls_golite062009
transcription coactivator activity	1.51022821676155	bayes_pls_golite062009
transcription activator activity	0.885026804340494	bayes_pls_golite062009
transcription factor binding	0.77254170640454	bayes_pls_golite062009
transcription cofactor activity	0.58884884939295	bayes_pls_golite062009
phosphodiesterase I activity	0.541624633849381	bayes_pls_golite062009
protein binding	0.476649214025345	bayes_pls_golite062009
endodeoxyribonuclease activity	0.36131816190494	bayes_pls_golite062009
hydrolase activity	0.326226276200076	bayes_pls_golite062009
inositol or phosphatidylinositol phosphatase activity	0.228910502815798	bayes_pls_golite062009
phosphoric ester hydrolase activity	0.100365481550461	bayes_pls_golite062009
phosphatase activity	0.00559251346312178	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: