YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|254848946, gi...
Organism:	Vibrio cholerae MO10
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 gi|254848946, gi....

Description	E-value	Query Range	Subject Range
gi\|27365439, gi\|... - gi\|27365439\|ref\|NP_760967.1\| exonuclease III [Vibrio vulnificus CMCP6], gi\|27361587\|gb\|AAO10494.1\|AE...	257.0	[0..1]	[268..1]
gi\|37680518, gi\|... - gi\|37680518\|ref\|NP_935127.1\| exonuclease III [Vibrio vulnificus YJ016], gi\|37199266\|dbj\|BAC95098.1\| ...	255.0	[0..1]	[268..1]
gi\|84375616, gi\|... - gi\|84393754\|ref\|ZP_00992502.1\| exodeoxyribonuclease III [Vibrio splendidus 12B01], gi\|84375616\|gb\|EA...	255.0	[0..1]	[268..1]
gi\|86146435, gi\|... - gi\|86146435\|ref\|ZP_01064758.1\| exodeoxyribonuclease III [Vibrio sp. MED222], gi\|85835698\|gb\|EAQ53833...	255.0	[0..1]	[268..1]
gi\|91225244, gi\|... - gi\|91225244\|ref\|ZP_01260412.1\| exodeoxyribonuclease III [Vibrio alginolyticus 12G01], gi\|91189883\|gb...	255.0	[0..1]	[268..1]
gi\|254228998, gi... - gi\|75854389\|ref\|ZP_00762086.1\| COG0708: Exonuclease III [Vibrio sp. Ex25], gi\|254228998\|ref\|ZP_04922...	254.0	[0..1]	[268..1]
gi\|83569646 - gi\|83569646\|ref\|ZP_00921097.1\| COG0708: Exonuclease III [Shigella dysenteriae 1012]	252.0	[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...	252.0	[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...	252.0	[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\|...	252.0	[0..1]	[268..1]

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Predicted Domain #1

Region A:
Residues: [1-268]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MKVISFNING LRARLHQLQA LIDKHQPDVI GLQEIKVHDE AFPRQEVEAM GYQVYFHGQK  60
   61 AHYGVAILCK QTPVEVIKGF PTDNEEHQKR MIMATFADQN GQKTTILNGY FPQGDNVEHE 120
  121 TKFPYKRQFY RDLMTYLREH RSNSERLVVM GDINISPLDL DIGIGEANRK RWLQTGKCSF 180
  181 QPEEREWLQT LLDWGLVDTF RQLHPDVSDQ FSWFDYRSRG FEDNRGLRID VILATPTLAE 240
  241 TCQEAGIDYE LRAIDKPSDH APIWTTFK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	66.39794
Match:	1akoA
Description:	EXONUCLEASE III FROM ESCHERICHIA COLI
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
exonuclease activity	2.70644978530491	bayes_pls_golite062009
exonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters	2.57658637220545	bayes_pls_golite062009
deoxyribonuclease activity	2.54419310609558	bayes_pls_golite062009
hydrolase activity	2.50832753420463	bayes_pls_golite062009
hydrolase activity, acting on ester bonds	2.36841783202726	bayes_pls_golite062009
exodeoxyribonuclease activity	1.8139951607534	bayes_pls_golite062009
exodeoxyribonuclease activity, producing 5'-phosphomonoesters	1.7967853371745	bayes_pls_golite062009
nuclease activity	1.78432551160775	bayes_pls_golite062009
catalytic activity	1.76511376991978	bayes_pls_golite062009
binding	1.74593496417303	bayes_pls_golite062009
DNA binding	0.961734136090079	bayes_pls_golite062009
nucleic acid binding	0.947430734766989	bayes_pls_golite062009
transcription regulator activity	0.597390739522692	bayes_pls_golite062009
transcription coactivator activity	0.58571720340663	bayes_pls_golite062009
transcription factor binding	0.55477888309075	bayes_pls_golite062009
protein binding	0.476649214025345	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: