YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24350697, gi\|...
Organism:	Shewanella oneidensis MR-1
Length:	271 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|24350697, gi|....

Description	E-value	Query Range	Subject Range
gi\|67535212, gi\|... - gi\|67543535\|ref\|ZP_00421467.1\| Integrase, catalytic region [Burkholderia vietnamiensis G4], gi\|67535...	177.0	[0..2]	[271..49]
gi\|67634060, gi\|... - gi\|67634060\|ref\|ZP_00433087.1\| COG2801: Transposase and inactivated derivatives [Burkholderia mallei...	175.0	[0..2]	[269..35]
gi\|194514309, gi... - gi\|254198616\|ref\|ZP_04905037.1\| TnpB [Burkholderia pseudomallei S13], gi\|194514309\|ref\|YP_002049838.... gi\|52211138, gi\|... - gi\|53720724\|ref\|YP_109710.1\| insertion element hypothetical protein [Burkholderia pseudomallei K9624...	174.0	[0..2]	[271..1]
gi\|150032943, gi... - gi\|150398058\|ref\|YP_001328525.1\| integrase catalytic region [Sinorhizobium medicae WSM419], gi\|15037...	170.0	[0..1]	[271..1]
gi\|20804069 - gi\|20804069\|emb\|CAD31272.1\| PUTATIVE TRANSPOSASE FOR INSERTION SEQUENCE [Mesorhizobium loti]	169.0	[0..1]	[271..1]
gi\|57225420, gi\|... - gi\|57234972\|ref\|YP_180914.1\| ISDet2, transposase orfB [Dehalococcoides ethenogenes 195], gi\|57225420...	167.0	[0..11]	[271..1]
gi\|77654543, gi\|... - gi\|91975224\|ref\|YP_567883.1\| integrase catalytic subunit [Rhodopseudomonas palustris BisB5], gi\|9168...	166.0	[0..1]	[271..87]
gi\|116255009, gi... - gi\|116255009\|ref\|YP_770844.1\| putative transposase related protein [Rhizobium leguminosarum bv. vici...	165.0	[0..1]	[271..1]

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Predicted Domain #1

Region A:
Residues: [1-62]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MVKLSQRKAM AQHAVANRKI SIRLACAAFC ISETCYRYRR VNDDENAEIA EFLVELTEKE  60
   61 SD

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #2

Region A:
Residues: [63-271]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 WGFGQCFNYL RNVKGFAWNH KRVYRIYCEL ALNLRIKPRR RLKRNAPEPL KEPTKANQVW  60
   61 SIDFMHDQLS DGRSYRLFNV IDDFKREGLA IEAGFSLPTM RVIRTLNQLL EGRTKPIAIR 120
  121 CDNGPEFISH EFTEWAKKHE IRIDYIQPGK PQQNAYIERH NKTIRYSWVS KHLFDTLEEV 180
  181 QDYATKWLWF YNHERPHKAN GGKPPLMVA

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	3.7
Match:	1k6yA
Description:	N-terminal Zn binding domain of HIV integrase; Retroviral integrase, catalytic domain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
catalytic activity	1.53924789709051	bayes_pls_golite062009
nuclease activity	1.33447740033502	bayes_pls_golite062009
hydrolase activity, acting on ester bonds	1.23347009562032	bayes_pls_golite062009
hydrolase activity	1.22075366957547	bayes_pls_golite062009
exonuclease activity	1.20458535230258	bayes_pls_golite062009
transposase activity	0.965908684749648	bayes_pls_golite062009
deoxyribonuclease activity	0.330313608754008	bayes_pls_golite062009
ribonuclease activity	0.26323966197813	bayes_pls_golite062009
exonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters	0.248165509716873	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: