YRC Public Data Repository - Protein Structure Prediction

Protein:	Y217_VIBCH
Organism:	Vibrio cholerae O1 biovar El Tor str. N16961
Length:	224 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 Y217_VIBCH.

Description	E-value	Query Range	Subject Range
gi\|67154910 - gi\|67154910\|ref\|ZP_00416655.1\| DNA repair protein RadC [Azotobacter vinelandii AvOP] gi\|67154910, gi\|... - gi\|67154910\|ref\|ZP_00416655.1\| DNA repair protein RadC [Azotobacter vinelandii AvOP], gi\|67089043\|gb...	322.0	[0..1]	[224..112]
Y825_VIBVU - UPF0758 protein VV1_0825 OS=Vibrio vulnificus (strain CMCP6) GN=VV1_0825 PE=3 SV=2 Y825_VIBVU, RADC... - UPF0758 protein VV1_0825 OS=Vibrio vulnificus GN=VV1_0825 PE=3 SV=2, DNA repair protein radC homolog... Y285_VIBVY - UPF0758 protein VV0285 OS=Vibrio vulnificus (strain YJ016) GN=VV0285 PE=3 SV=1	317.0	[0..1]	[224..1]
Y5539_PSEPF - UPF0758 protein Pfl01_5539 OS=Pseudomonas fluorescens (strain Pf0-1) GN=Pfl01_5539 PE=3 SV=1	316.0	[0..1]	[224..1]
Y236_NITOC - UPF0758 protein Noc_0236 OS=Nitrosococcus oceani (strain ATCC 19707 / NCIMB 11848) GN=Noc_0236 PE=3 ...	314.0	[0..1]	[224..1]
Y1464_NITEU - UPF0758 protein NE1464 OS=Nitrosomonas europaea (strain ATCC 19718 / NBRC 14298) GN=NE1464 PE=3 SV=1 Y1464_NITEU, RAD... - UPF0758 protein NE1464 OS=Nitrosomonas europaea GN=NE1464 PE=3 SV=1, DNA repair protein radC homolog...	311.0	[0..1]	[224..1]
Y782_NITEC - UPF0758 protein Neut_0782 OS=Nitrosomonas eutropha (strain C91) GN=Neut_0782 PE=3 SV=1	311.0	[0..1]	[224..1]
Y086_PSESM - UPF0758 protein PSPTO_0086 OS=Pseudomonas syringae pv. tomato (strain DC3000) GN=PSPTO_0086 PE=3 SV=... gi\|213924519, gi... - gi\|213970685\|ref\|ZP_03398810.1\| DNA repair protein RadC [Pseudomonas syringae pv. tomato T1], gi\|213... RADC_PSESM, Y086... - UPF0758 protein PSPTO_0086 OS=Pseudomonas syringae pv. tomato GN=PSPTO_0086 PE=3 SV=1, DNA repair pr...	310.0	[0..1]	[224..1]
Y184_VIBPA, RADC... - UPF0758 protein VP0184 OS=Vibrio parahaemolyticus GN=VP0184 PE=3 SV=1, DNA repair protein radC homol... Y184_VIBPA - UPF0758 protein VP0184 OS=Vibrio parahaemolyticus serotype O3:K6 (strain RIMD 2210633) GN=VP0184 PE=...	309.0	[0..1]	[224..1]
RADC_PHOPR, Y202... - UPF0758 protein PBPRA0202 OS=Photobacterium profundum GN=PBPRA0202 PE=3 SV=1, DNA repair protein rad... Y202_PHOPR - UPF0758 protein PBPRA0202 OS=Photobacterium profundum (strain SS9) GN=PBPRA0202 PE=3 SV=1	309.0	[0..1]	[224..1]
gi\|94427962, gi\|... - gi\|94499761\|ref\|ZP_01306297.1\| DNA repair protein RadC [Oceanobacter sp. RED65], gi\|94427962\|gb\|EAT1...	308.0	[0..1]	[224..1]

Back

Predicted Domain #1

Region A:
Residues: [1-82]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSLKQLPTES MPREKLLQRG PQSLSDAELL AIFLRTGTQG MNVLALADLL LRDFGSLRAL  60
   61 FCASKEQFCR HKGLGEAKFV QL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	9.0
Match:	1x2iA
Description:	Crystal Structure Of Archaeal Xpf/Mus81 Homolog, Hef From Pyrococcus Furiosus, Helix-hairpin-helix Domain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
deoxyribonuclease activity	1.94644856236502	bayes_pls_golite062009
catalytic activity	1.9303555688427	bayes_pls_golite062009
endodeoxyribonuclease activity	1.88989456615424	bayes_pls_golite062009
DNA helicase activity	1.83146987493465	bayes_pls_golite062009
four-way junction helicase activity	1.7774844748266	bayes_pls_golite062009
hydrolase activity	1.66546843102205	bayes_pls_golite062009
excinuclease ABC activity	1.39254708050007	bayes_pls_golite062009
helicase activity	1.14079869095094	bayes_pls_golite062009
damaged DNA binding	0.72918713704553	bayes_pls_golite062009
single-stranded DNA binding	0.44369712964701	bayes_pls_golite062009
structure-specific DNA binding	0.36890004800241	bayes_pls_golite062009
nuclease activity	0.32594639151447	bayes_pls_golite062009
endonuclease activity	0.287519901768059	bayes_pls_golite062009
hydrolase activity, acting on ester bonds	0.15944437485539	bayes_pls_golite062009
pyrophosphatase activity	0.0669727336969201	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides	0.05756449780621	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides	0.0572628370858399	bayes_pls_golite062009
nucleoside-triphosphatase activity	0.0554315973046002	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [83-224]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 QAVLEMTQRY LAETLKRGDA LTSPQQTKLY LSSVLRDRQR EAFYILFLDN QHRVIRDEIL  60
   61 FEGTIDAASV YPREVVKRAL HHNAAAVILA HNHPSGVAEP SQADRRITDR LRDALGLVEI 120
  121 RVLDHFVVGD GEVVSFAERG WI

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	40.69897
Match:	2qlcA
Description:	No description for 2qlcA was found.

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: