YRC Public Data Repository - Protein Structure Prediction

Protein:	SO3462
Organism:	Shewanella oneidensis
Length:	552 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

[What does the above image mean?]

[Show Ginzu Version Information]

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 SO3462.

Description	E-value	Query Range	Subject Range
gi\|115350691, gi... - gi\|74017086\|ref\|ZP_00687711.1\| DNA repair protein RecN [Burkholderia ambifaria AMMD], gi\|72610557\|gb...	279.0	[0..1]	[551..1]
gi\|84360836, gi\|... - gi\|84360836\|ref\|ZP_00985524.1\| COG0497: ATPase involved in DNA repair [Burkholderia dolosa AUO158], ...	275.0	[0..1]	[551..1]
gi\|119774163, gi... - gi\|68546856\|ref\|ZP_00586400.1\| DNA repair protein RecN [Shewanella amazonensis SB2B], gi\|68515445\|gb...	274.0	[0..1]	[552..1]
gi\|134137973, gi... - gi\|67547624\|ref\|ZP_00425525.1\| DNA repair protein RecN [Burkholderia vietnamiensis G4], gi\|67531059\|...	273.0	[0..1]	[551..1]
gi\|113888118, gi... - gi\|114046676\|ref\|YP_737226.1\| recombination and repair protein [Shewanella sp. MR-7], gi\|113888118\|g...	272.0	[0..1]	[552..1]
gi\|116646855, gi... - gi\|67665874\|ref\|ZP_00463131.1\| DNA repair protein RecN [Burkholderia cenocepacia HI2424], gi\|6710055... gi\|194557246, gi... - gi\|84356879\|ref\|ZP_00981712.1\| COG0497: ATPase involved in DNA repair [Burkholderia cenocepacia PC18... gi\|67658239, gi\|... - gi\|67658239\|ref\|ZP_00455612.1\| DNA repair protein RecN [Burkholderia cenocepacia AU 1054], gi\|670940...	271.0	[0..1]	[551..1]
gi\|78506491, gi\|... - gi\|78685806\|ref\|ZP_00850581.1\| DNA repair protein RecN [Shewanella sp. ANA-3], gi\|78506491\|gb\|EAP200...	271.0	[0..1]	[552..1]
gi\|45440885, gi\|... - gi\|45440885\|ref\|NP_992424.1\| recombination and repair protein [Yersinia pestis biovar Microtus str. ... gi\|21959992, gi\|... - gi\|22126951\|ref\|NP_670374.1\| recombination and repair protein [Yersinia pestis KIM], gi\|21959992\|gb\|...	270.0	[0..1]	[551..37]
gi\|82404450, gi\|... - gi\|82497527\|ref\|ZP_00883060.1\| DNA repair protein RecN [Shewanella sp. MR-4], gi\|82404450\|gb\|EAP4513...	269.0	[0..1]	[552..1]
gi\|77809760, gi\|... - gi\|77815286\|ref\|ZP_00814524.1\| DNA repair protein RecN [Shewanella putrefaciens CN-32], gi\|77809760\|...	268.0	[0..1]	[552..1]

Back

Predicted Domain #1

Region A:
Residues: [1-171]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MLCQLSINNF AIVRFLELDF SPGMTSITGE TGAGKSIAID ALGLCLGNRA DASSVRPGAS  60
   61 KTEVSARFSL HDVPLAKRWL EDNDLELDDE CILRRTIGSD GRSRAYINGN PVPLTQLKLL 120
  121 GQLLVGIHGQ HAHHAMLKSE HQLTLLDSYA NHRLLIDTVT ASYQRCKQIE A

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	27.0
Match:	1xewX
Description:	Structural biochemistry of ATP-driven dimerization and DNA stimulated activation of SMC ATPases.
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
nucleoside-triphosphatase activity	1.5002869400376	bayes_pls_golite062009
pyrophosphatase activity	1.49611313354225	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides	1.47468810672455	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides	1.47371190790284	bayes_pls_golite062009
binding	1.41264401383678	bayes_pls_golite062009
hydrolase activity	1.29419296935491	bayes_pls_golite062009
catalytic activity	1.00104173493322	bayes_pls_golite062009
ATPase activity	0.844502974582959	bayes_pls_golite062009
DNA-dependent ATPase activity	0.510757066819002	bayes_pls_golite062009
helicase activity	0.51056840156051	bayes_pls_golite062009
nucleic acid binding	0.216266069700019	bayes_pls_golite062009
DNA helicase activity	0.148854929640752	bayes_pls_golite062009
nucleotide binding	0.114848452385726	bayes_pls_golite062009
purine nucleotide binding	0.10713474095071	bayes_pls_golite062009
purine ribonucleotide binding	0.0916519414118148	bayes_pls_golite062009
ribonucleotide binding	0.0915913646217636	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [172-337]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ELKQLEASQH ERIARKQLVQ YQVEELDEFD LKVGEFEEIE QEHKRLANGT ELVDSCQASL  60
   61 YLLTDGEESN IESLLNKVVS LAENLQSYDP ALTNVSTMLN EALIQVQESA GELQHYLSKL 120
  121 ELDPAYFAYL EERLSKAMQL ARKHHVSPDK LAEHHLALKA ELTTLD

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	1.45
Match:	1jchA
Description:	Ribonuclease domain of colicin E3; Colicin E3 translocation domain; Colicin E3 receptor domain
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [338-552]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DDETKLEEIQ LQVEASKSAY LANAQKLSQS RARYAKELDK LVTQSIHELN MPKGKFTIEV  60
   61 NFNPEIMSVN GSDNIEFMVT TNPGQPLQPI SRVASGGELS RIGLGIQVIT AKKVATPTLI 120
  121 FDEVDVGISG PTAAVVGRML RSLGESTQVL CVTHLPQVAG NGHQHMFVNK FNKAGSTETT 180
  181 MTPLDKEQRI QELARLLGGD TITSNTLANA RELLQ

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	15.69897
Match:	1jj7A
Description:	Peptide transporter Tap1, C-terminal ABC domain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
nucleoside-triphosphatase activity	1.5002869400376	bayes_pls_golite062009
pyrophosphatase activity	1.49611313354225	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides	1.47468810672455	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides	1.47371190790284	bayes_pls_golite062009
binding	1.41264401383678	bayes_pls_golite062009
hydrolase activity	1.29419296935491	bayes_pls_golite062009
catalytic activity	1.00104173493322	bayes_pls_golite062009
ATPase activity	0.844502974582959	bayes_pls_golite062009
DNA-dependent ATPase activity	0.510757066819002	bayes_pls_golite062009
helicase activity	0.51056840156051	bayes_pls_golite062009
nucleic acid binding	0.216266069700019	bayes_pls_golite062009
DNA helicase activity	0.148854929640752	bayes_pls_golite062009
nucleotide binding	0.114848452385726	bayes_pls_golite062009
purine nucleotide binding	0.10713474095071	bayes_pls_golite062009
purine ribonucleotide binding	0.0916519414118148	bayes_pls_golite062009
ribonucleotide binding	0.0915913646217636	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: