YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24345839, gi\|...
Organism:	Shewanella oneidensis MR-1
Length:	429 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|24345839, gi|....

Description	E-value	Query Range	Subject Range
gi\|28872456, gi\|... - gi\|28872456\|ref\|NP_795075.1\| phage integrase family site specific recombinase [Pseudomonas syringae ... tr\|Q87UF4\|Q87UF4... - Site-specific recombinase, phage integrase family OS=Pseudomonas syringae pv. tomato (strain DC3000)...	216.0	[0..5]	[424..1]
gi\|67156550 - gi\|67156550\|ref\|ZP_00418143.1\| Phage integrase [Azotobacter vinelandii AvOP] gi\|67156550, gi\|... - gi\|67156550\|ref\|ZP_00418143.1\| Phage integrase [Azotobacter vinelandii AvOP], gi\|67086309\|gb\|EAM0577...	214.0	[0..5]	[423..1]
gi\|77974232, gi\|... - gi\|77974232\|ref\|ZP_00829773.1\| COG0582: Integrase [Yersinia frederiksenii ATCC 33641], gi\|238790928\|...	214.0	[0..5]	[411..1]
gi\|77962153, gi\|... - gi\|77962153\|ref\|ZP_00825977.1\| COG0582: Integrase [Yersinia mollaretii ATCC 43969], gi\|238795435\|ref...	213.0	[0..5]	[411..1]
gi\|75194504, gi\|... - gi\|75194504\|ref\|ZP_00704574.1\| COG0582: Integrase [Escherichia coli HS], gi\|157159783\|ref\|YP_0014571...	210.0	[0..5]	[409..1]
gi\|46579938, gi\|... - gi\|46579938\|ref\|YP_010746.1\| phage integrase family site specific recombinase [Desulfovibrio vulgari... gi\|241907414, gi... - gi\|241907414\|ref\|ZP_04791992.1\| integrase family protein [Desulfovibrio vulgaris RCH1], gi\|241880113...	207.0	[0..6]	[411..1]
gi\|165937212, gi... - gi\|89104791\|ref\|ZP_01177324.1\| COG0582: Integrase [Yersinia pestis biovar Orientalis str. IP275], gi... gi\|229903702, gi... - gi\|229903702\|ref\|ZP_04518815.1\| integrase [Yersinia pestis Nepal516], gi\|229679472\|gb\|EEO75575.1\| in... gi\|166010284, gi... - gi\|166010284\|ref\|ZP_02231182.1\| site-specific recombinase, phage integrase family [Yersinia pestis b... gi\|229837573, gi... - gi\|229837573\|ref\|ZP_04457735.1\| integrase [Yersinia pestis Pestoides A], gi\|229704261\|gb\|EEO91272.1\|... gi\|229840796, gi... - gi\|229840796\|ref\|ZP_04460955.1\| integrase [Yersinia pestis biovar Orientalis str. PEXU2], gi\|2296971... gi\|167419049, gi... - gi\|167419049\|ref\|ZP_02310802.1\| site-specific recombinase, phage integrase family [Yersinia pestis b... gi\|229842645, gi... - gi\|229842645\|ref\|ZP_04462800.1\| integrase [Yersinia pestis biovar Orientalis str. India 195], gi\|229... gi\|166212857, gi... - gi\|166212857\|ref\|ZP_02238892.1\| site-specific recombinase, phage integrase family [Yersinia pestis b... gi\|167467319 - gi\|167467319\|ref\|ZP_02332023.1\| site-specific recombinase, phage integrase family protein [Yersinia ... gi\|150260102, gi... - gi\|150260102\|ref\|ZP_01916830.1\| integrase [Yersinia pestis CA88-4125], gi\|149289510\|gb\|EDM39587.1\| i... gi\|167055763, gi... - gi\|167425363\|ref\|ZP_02317116.1\| site-specific recombinase, phage integrase family [Yersinia pestis b... gi\|21960208, gi\|... - gi\|22127147\|ref\|NP_670570.1\| integrase [Yersinia pestis KIM], gi\|21960208\|gb\|AAM86821.1\|AE013928_6 p... gi\|25301796 - pir\|\|AH0108 integrase [imported] - Yersinia pestis (strain CO92) gi\|16121192, gi\|... - gi\|218928060\|ref\|YP_002345935.1\| integrase [Yersinia pestis CO92], gi\|16121192\|ref\|NP_404505.1\| inte... gi\|45443318, gi\|... - gi\|45443318\|ref\|NP_994857.1\| integrase [Yersinia pestis biovar Microtus str. 91001], gi\|45438187\|gb\|... gi\|77635814, gi\|... - gi\|77635814\|ref\|ZP_00797894.1\| COG0582: Integrase [Yersinia pestis Angola], gi\|162418465\|ref\|YP_0016...	207.0	[0..5]	[415..1]
gi\|170023174, gi... - gi\|170023174\|ref\|YP_001719679.1\| integrase family protein [Yersinia pseudotuberculosis YPIII], gi\|16... gi\|186699619, gi... - gi\|186896593\|ref\|YP_001873705.1\| integrase family protein [Yersinia pseudotuberculosis PB1/+], gi\|18... gi\|153947530, gi... - gi\|77630139\|ref\|ZP_00792725.1\| COG0582: Integrase [Yersinia pseudotuberculosis IP 31758], gi\|1539475... Q666T4\|Q666T4_YERPS - Putative phage integrase - Yersinia pseudotuberculosis gi\|51590755, gi\|... - gi\|51597473\|ref\|YP_071664.1\| putative phage integrase. [Yersinia pseudotuberculosis IP 32953], gi\|51...	206.0	[0..5]	[415..1]
gi\|253975488, gi... - gi\|254163587\|ref\|YP_003046695.1\| Int [Escherichia coli B str. REL606], gi\|253975488\|gb\|ACT41159.1\| I... gi\|194435929, gi... - gi\|83588494\|ref\|ZP_00927118.1\| COG0582: Integrase [Escherichia coli 101-1], gi\|194435929\|ref\|ZP_0306... gi\|57545625 - gi\|57545625\|gb\|AAW51716.1\| Int [Escherichia coli] gi\|26250313, gi\|... - gi\|26250313\|ref\|NP_756353.1\| putative prophage integrase [Escherichia coli CFT073], gi\|26110743\|gb\|A... gi\|251786909, gi... - gi\|251786909\|ref\|YP_003001213.1\| hypothetical protein B21_03468 [Escherichia coli BL21], gi\|24237918... gi\|254290337, gi... - gi\|254290337\|ref\|YP_003056085.1\| Int [Escherichia coli BL21(DE3)], gi\|253979644\|gb\|ACT45314.1\| Int [...	206.0	[0..7]	[415..1]
gi\|14252927 - gi\|14252927\|emb\|CAC39282.1\| integrase [Escherichia coli]	205.0	[0..7]	[415..1]

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Predicted Domain #1

Region A:
Residues: [1-105]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MATKKNMTNT ALVSLTNKPL DKPTTLSDSG GLAARATPAK DGKGNNVLWI FRYRMGGRET  60
   61 PQRTIVFGKY PDLKLAGARE KRERCKVWIA DGKDPKTQLE LELSK

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below are all of our structure predictions for this domain.
Click here to view only most confident match.

Found no structure predictions for this domain.

Predicted Domain #2

Region A:
Residues: [106-429]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 AVKPLTVAEV LDNWISEYAN GKRVNASKHK QQFERWIVPH LGSLPLAEIK KPHWIAALKK  60
   61 RSQKYPVAAG YVLRNLQQAL KWCAKSGHEF DRSVFDIDLD DIGAKHQAKR SQRLVEDDSW 120
  121 QRLIDLLKWI EAGEMLPYYK NLLILLITFG ARTQELRLAT TKEFNFETGV WTVPAEHNKT 180
  181 QAKDQARGDS GEIKRPIPDS IKPLLVALCE ANKGGYLLGE FKEPTAVSAW GGNIWKKLGH 240
  241 EQKWRLHDLR RTVATGLNDL GVAPHVVESL LGHSIQGVAG IYNRSHYLPE KRQALELWCN 300
  301 RLDELLSGED CNVFLLRASN DKRS

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	44.39794
Match:	1a0pA
Description:	SITE-SPECIFIC RECOMBINASE, XERD
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
structure-specific DNA binding	2.96794540657137	bayes_pls_golite062009
catalytic activity	1.85476765215403	bayes_pls_golite062009
double-stranded DNA binding	1.47056442077417	bayes_pls_golite062009
DNA binding	1.08208472364243	bayes_pls_golite062009
nucleic acid binding	1.01945666037816	bayes_pls_golite062009
binding	0.849061082531999	bayes_pls_golite062009
protein binding	0.391840757563427	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: