YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24375047, gi\|...
Organism:	Shewanella oneidensis MR-1
Length:	346 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|24375047, gi|....

Description	E-value	Query Range	Subject Range
gi\|37198668, gi\|... - gi\|37681360\|ref\|NP_935969.1\| iSSod13, transposase [Vibrio vulnificus YJ016], gi\|37680375\|ref\|NP_9349...	233.0	[0..1]	[346..1]
gi\|145566710, gi... - gi\|77815225\|ref\|ZP_00814464.1\| Integrase, catalytic region [Shewanella putrefaciens CN-32], gi\|77809...	226.0	[0..1]	[346..1]
gi\|69159039, gi\|... - gi\|91794927\|ref\|YP_564578.1\| integrase catalytic subunit [Shewanella denitrificans OS217], gi\|917169...	226.0	[0..1]	[346..1]
gi\|78690602, gi\|... - gi\|78690602\|ref\|ZP_00855245.1\| iSSod13, transposase [Shewanella sp. MR-7], gi\|78510018\|gb\|EAP23397.1...	220.0	[0..1]	[346..1]
gi\|53754786, gi\|... - gi\|54294954\|ref\|YP_127369.1\| hypothetical protein lpl2033 [Legionella pneumophila str. Lens], gi\|537...	217.0	[0..1]	[344..1]
gi\|115292856, gi... - gi\|115345535\|ref\|YP_771717.1\| integrase catalytic subunit [Roseobacter denitrificans OCh 114], gi\|11...	217.0	[0..1]	[344..1]
gi\|30248274, gi\|... - gi\|30250367\|ref\|NP_842437.1\| integrase catalytic subunit [Nitrosomonas europaea ATCC 19718], gi\|3025...	214.0	[0..1]	[341..1]
gi\|282086, gi\|141836 - pir\|\|S27482 hypothetical protein 1 - Actinobacillus pleuropneumoniae, gi\|141836\|gb\|AAA21927.1\| ORF1...	214.0	[0..1]	[345..1]
gi\|53729012 - gi\|53729012\|ref\|ZP_00134264.2\| COG2801: Transposase and inactivated derivatives [Actinobacillus pleu... gi\|165876482, gi... - gi\|165976381\|ref\|YP_001651974.1\| hypothetical protein APJL_0972 [Actinobacillus pleuropneumoniae ser... gi\|126097216, gi... - gi\|126208424\|ref\|YP_001053649.1\| transposase [Actinobacillus pleuropneumoniae L20], gi\|126097216\|gb\|... gi\|190150281, gi... - gi\|190150812\|ref\|YP_001969337.1\| transposase [Actinobacillus pleuropneumoniae serovar 7 str. AP76], ...	214.0	[0..1]	[345..1]
gi\|52841474, gi\|... - gi\|52842630\|ref\|YP_096429.1\| transposase (ISSod13) [Legionella pneumophila subsp. pneumophila str. P...	213.0	[0..1]	[344..16]

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Predicted Domain #1

Region A:
Residues: [1-98]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MLHSNNPIIK HKTGLLNLAE ELSNVSRACK VMGVSRDTFY RYRELVDDGG VDALIEKSRR  60
   61 SPNLKNRVEE AVEQAVMEYA IEFPAHGQHR TSNELRKK

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	3.82
Match:	1pdnC
Description:	Paired protein (prd)
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
transcription regulator activity	1.49632014394309	bayes_pls_golite062009
DNA binding	1.3191703194956	bayes_pls_golite062009
nucleic acid binding	1.24039515448759	bayes_pls_golite062009
binding	0.993284934100708	bayes_pls_golite062009
transcription factor activity	0.793064804495389	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [99-346]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GVFVSGSGVR SIWLRHDLEN FKKRLKALEA KVARDGIQLT DEQIAALERK KHDDEACGEI  60
   61 ETAHPGYLGS QDTFYVGNLK GVGRIYQQTY VDTYCKVAHC KLYTTKTPIT AADLLNDKVL 120
  121 PFYESQQLPV LRILTDRGTE YCGKVEHHDY QLYLAINDID HTKTKAMSPQ TNGICERFHK 180
  181 TILNEFYQVT FRKKLYQTLE ELQKDLDEWL SYYNNERTHQ GKMCNGRTPV ETLIDGKRVW 240
  241 AEKNLTRI

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	29.0
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
nuclease activity	1.81796593394339	bayes_pls_golite062009
exonuclease activity	1.64964907710028	bayes_pls_golite062009
catalytic activity	1.62277843225829	bayes_pls_golite062009
hydrolase activity, acting on ester bonds	1.58702937619673	bayes_pls_golite062009
hydrolase activity	1.41857676124086	bayes_pls_golite062009
transposase activity	1.09803761537443	bayes_pls_golite062009
ribonuclease activity	0.71352601607444	bayes_pls_golite062009
deoxyribonuclease activity	0.63299586096139	bayes_pls_golite062009
exonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters	0.62821439153618	bayes_pls_golite062009
endonuclease activity	0.150927275899469	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:

Predicted functions: