YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24344844, gi\|...
Organism:	Shewanella oneidensis MR-1
Length:	376 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|24344844, gi|....

Description	E-value	Query Range	Subject Range
gi\|126173818, gi... - gi\|68544040\|ref\|ZP_00583717.1\| Phage integrase [Shewanella baltica OS155], gi\|68518262\|gb\|EAN41846.1...	215.0	[0..1]	[376..1]
gi\|69133179, gi\|... - gi\|99078558\|ref\|YP_611816.1\| phage integrase [Silicibacter sp. TM1040], gi\|99035696\|gb\|ABF62554.1\| p...	212.0	[0..5]	[370..22]
gi\|75194504, gi\|... - gi\|75194504\|ref\|ZP_00704574.1\| COG0582: Integrase [Escherichia coli HS], gi\|157159783\|ref\|YP_0014571...	211.0	[0..4]	[373..1]
gi\|77974232, gi\|... - gi\|77974232\|ref\|ZP_00829773.1\| COG0582: Integrase [Yersinia frederiksenii ATCC 33641], gi\|238790928\|...	208.0	[0..4]	[375..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 [...	208.0	[0..4]	[376..1]
gi\|190902162, gi... - gi\|75229050\|ref\|ZP_00715634.1\| COG0582: Integrase [Escherichia coli B7A], gi\|191167819\|ref\|ZP_030296...	208.0	[0..4]	[372..1]
gi\|14252927 - gi\|14252927\|emb\|CAC39282.1\| integrase [Escherichia coli]	208.0	[0..4]	[376..1]
gi\|77962153, gi\|... - gi\|77962153\|ref\|ZP_00825977.1\| COG0582: Integrase [Yersinia mollaretii ATCC 43969], gi\|238795435\|ref...	207.0	[0..4]	[372..1]
gi\|110617213, gi... - gi\|110807665\|ref\|YP_691185.1\| putative integrase [Shigella flexneri 5 str. 8401], gi\|110617213\|gb\|AB... gi\|11278380, gi\|... - gi\|5532446\|gb\|AAD44730.1\|AF141323_1 Int [Shigella flexneri], pir\|\|T44463 integrase int [imported] - ...	207.0	[0..4]	[376..1]

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Predicted Domain #1

Region A:
Residues: [1-376]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MPSIKLQQSM IDNLPTPQKI TVFYDKYFPA FFMRAYPSGI RCYYVRFQYQ GLRQLHVIGN  60
   61 ANDITLDDAR LEARKHIDAL RYGVVSEPVP SLTLCAFAEE FFPRYARHWK PSTLLNSQRG 120
  121 FTRHIAPVLG DVPLAALTRQ HIEQWFDGMH ASKGMANRLL PLLSVMMQQA EVYEYRPAQS 180
  181 NPCKGFKRYK STHSERYLSE EELKRLWLAL DSHEKASPVA VMVLRLLILT GCRCNEVCSV 240
  241 KWADYRQGHW YLPDSKTGAK TVFLSSFARE LLSDWPQVSE HLFWHQSPSQ PFTPACLDRF 300
  301 WRPFRETIHL NDVRIHDLRH TYASIAVKHN INILTIGRLL GHALPETTLK YTHLAKRDVQ 360
  361 QAANVVSQLI AGEMQR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	25.30103
Match:	1z1bA
Description:	Crystal structure of a lambda integrase dimer bound to a COC' core site
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
site-specific recombinase activity	4.99325011803106	bayes_pls_golite062009
integrase activity	3.60695091575172	bayes_pls_golite062009
catalytic activity	2.22520758916604	bayes_pls_golite062009
structure-specific DNA binding	0.11292854906722	bayes_pls_golite062009
DNA binding	0.10970863758177	bayes_pls_golite062009
nucleic acid binding	0.06580979261817	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: