YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|170024248, gi...
Organism:	Yersinia pseudotuberculosis YPIII
Length:	213 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 gi|170024248, gi....

Description	E-value	Query Range	Subject Range
gi\|27366367, gi\|... - gi\|27366367\|ref\|NP_761895.1\| endonuclease III [Vibrio vulnificus CMCP6], gi\|27362568\|gb\|AAO11422.1\|A...	4.0E-66	[1..213]	[1..213]
gi\|37679370, gi\|... - gi\|37679370\|ref\|NP_933979.1\| EndoIII-related endonuclease [Vibrio vulnificus YJ016], gi\|37198113\|dbj...	4.0E-66	[1..213]	[1..213]
gi\|238721491, gi... - gi\|77972498\|ref\|ZP_00828062.1\| COG0177: Predicted EndoIII-related endonuclease [Yersinia frederiksen...	6.0E-65	[1..213]	[1..213]
gi\|77977471 - gi\|77977471\|ref\|ZP_00832919.1\| COG0177: Predicted EndoIII-related endonuclease [Yersinia intermedia ...	6.0E-65	[1..213]	[1..213]
gi\|28898882, gi\|... - gi\|28898882\|ref\|NP_798487.1\| endonuclease III [Vibrio parahaemolyticus RIMD 2210633], gi\|28807101\|db... gi\|28807101 - gi\|28807101\|dbj\|BAC60371.1\| endonuclease III [Vibrio parahaemolyticus RIMD 2210633]	6.0E-65	[1..211]	[1..211]
gi\|77868355, gi\|... - gi\|77952798\|ref\|ZP_00817211.1\| Endonuclease III/Nth [Marinobacter aquaeolei VT8], gi\|77868355\|gb\|EAO...	8.0E-65	[1..210]	[1..210]
gi\|77963251 - gi\|77963251\|ref\|ZP_00827062.1\| COG0177: Predicted EndoIII-related endonuclease [Yersinia mollaretii ...	1.0E-64	[1..213]	[1..213]
gi\|15602246, gi\|... - gi\|15602246\|ref\|NP_245318.1\| hypothetical protein PM0381 [Pasteurella multocida subsp. multocida str...	2.0E-64	[1..209]	[1..209]
tr\|A0A085R1X0\|A0... - Endonuclease III OS=Vibrio cholerae GN=nth PE=3 SV=1 gi\|121628275, gi... - gi\|75814531\|ref\|ZP_00745107.1\| COG0177: Predicted EndoIII-related endonuclease [Vibrio cholerae V52]... gi\|227012828, gi... - gi\|75826318\|ref\|ZP_00755753.1\| COG0177: Predicted EndoIII-related endonuclease [Vibrio cholerae O395... gi\|229525624, gi... - gi\|229525624\|ref\|ZP_04415029.1\| endonuclease III [Vibrio cholerae bv. albensis VL426], gi\|229339205\|... gi\|229515397, gi... - gi\|229515397\|ref\|ZP_04404856.1\| A/G-specific adenine glycosylase [Vibrio cholerae TMA 21], gi\|229347...	2.0E-64	[1..212]	[1..212]
gi\|88777366, gi\|... - gi\|88799935\|ref\|ZP_01115507.1\| endonuclease III [Reinekea sp. MED297], gi\|88777366\|gb\|EAR08569.1\| en...	2.0E-64	[1..209]	[1..209]

Back

Predicted Domain #1

Region A:
Residues: [1-213]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNKEKRVTIL TRLRDNNPHP TTELVYSTPF ELLISVLLSA QATDVSVNKA TARLYPVANT  60
   61 PQAILDLGVD GLKEYIKTIG LYNTKAENVI KTCRILLEKH QGEVPEDRAA LEALPGVGRK 120
  121 TANVVLNTAF GWPTIAVDTH IFRVCNRTGF APGSNVDQVE EKLLKVVPAE FKLDCHHWLI 180
  181 LHGRYTCIAR KPRCGSCIIE DLCEFKEKVY PEH

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	65.30103
Match:	2abkA
Description:	REFINEMENT OF THE NATIVE STRUCTURE OF ENDONUCLEASE III TO A RESOLUTION OF 1.85 ANGSTROM
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
DNA N-glycosylase activity	4.08559331236111	bayes_pls_golite062009
hydrolase activity, hydrolyzing N-glycosyl compounds	3.73234184319832	bayes_pls_golite062009
DNA-(apurinic or apyrimidinic site) lyase activity	3.12421941323765	bayes_pls_golite062009
hydrolase activity, acting on glycosyl bonds	2.54759386266723	bayes_pls_golite062009
catalytic activity	2.50389926428623	bayes_pls_golite062009
oxidized base lesion DNA N-glycosylase activity	1.80199518353554	bayes_pls_golite062009
alkylbase DNA N-glycosylase activity	1.75218522602775	bayes_pls_golite062009
hydrolase activity	1.39000450534744	bayes_pls_golite062009
DNA-3-methyladenine glycosylase I activity	1.14337995879633	bayes_pls_golite062009
oxidized purine base lesion DNA N-glycosylase activity	0.473206156100251	bayes_pls_golite062009
uracil DNA N-glycosylase activity	0.29478804124408	bayes_pls_golite062009
oxidized pyrimidine base lesion DNA N-glycosylase activity	0.253198605718519	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: