YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|16411347, gi\|...
Organism:	Listeria monocytogenes
Length:	219 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|16411347, gi|....

Description	E-value	Query Range	Subject Range
gi\|153167736, gi... - gi\|153167736\|ref\|ZP_01927840.1\| endonuclease III [Listeria monocytogenes FSL N1-017], gi\|133726835\|g... gi\|255521647 - gi\|255521647\|ref\|ZP_05388884.1\| endonuclease III (DNA repair) [Listeria monocytogenes FSL J1-175] gi\|254992080 - gi\|254992080\|ref\|ZP_05274270.1\| endonuclease III (DNA repair) [Listeria monocytogenes FSL J2-064] gi\|254877988 - gi\|254877988\|ref\|ZP_05250698.1\| endonuclease III (DNA repair) [Listeria monocytogenes FSL J2-071] gi\|153202888, gi... - gi\|254931935\|ref\|ZP_05265294.1\| endonuclease III (DNA repair) [Listeria monocytogenes HPB2262], gi\|1... gi\|254852798 - gi\|254852798\|ref\|ZP_05242146.1\| endonuclease III (DNA repair) [Listeria monocytogenes FSL R2-503] gi\|46908127, gi\|... - gi\|46908127\|ref\|YP_014516.1\| endonuclease III [Listeria monocytogenes str. 4b F2365], gi\|46881397\|gb... gi\|254825611 - gi\|254825611\|ref\|ZP_05230612.1\| endonuclease III (DNA repair) [Listeria monocytogenes FSL J1-194] gi\|226224498, gi... - gi\|226224498\|ref\|YP_002758605.1\| endonuclease III (DNA repair) [Listeria monocytogenes Clip81459], g...	249.0	[0..1]	[219..1]
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]	247.0	[0..2]	[210..1]
gi\|27366367, gi\|... - gi\|27366367\|ref\|NP_761895.1\| endonuclease III [Vibrio vulnificus CMCP6], gi\|27362568\|gb\|AAO11422.1\|A...	247.0	[0..2]	[210..1]
gi\|15602246, gi\|... - gi\|15602246\|ref\|NP_245318.1\| hypothetical protein PM0381 [Pasteurella multocida subsp. multocida str...	247.0	[0..2]	[211..1]
gi\|113461208, gi... - gi\|23467008\|ref\|ZP_00122593.1\| COG0177: Predicted EndoIII-related endonuclease [Haemophilus somnus 1... gi\|168825935, gi... - gi\|170717806\|ref\|YP_001784869.1\| endonuclease III [Haemophilus somnus 2336], gi\|168825935\|gb\|ACA3130...	247.0	[0..2]	[211..1]
gi\|37679370, gi\|... - gi\|37679370\|ref\|NP_933979.1\| EndoIII-related endonuclease [Vibrio vulnificus YJ016], gi\|37198113\|dbj...	247.0	[0..2]	[210..1]
gi\|77868355, gi\|... - gi\|77952798\|ref\|ZP_00817211.1\| Endonuclease III/Nth [Marinobacter aquaeolei VT8], gi\|77868355\|gb\|EAO...	247.0	[0..2]	[211..1]
gi\|126097154, gi... - gi\|126208362\|ref\|YP_001053587.1\| endonuclease III [Actinobacillus pleuropneumoniae L20], gi\|12609715... gi\|190150214, gi... - gi\|190150214\|ref\|YP_001968739.1\| endonuclease III [Actinobacillus pleuropneumoniae serovar 7 str. AP... gi\|32033526 - gi\|32033526\|ref\|ZP_00133853.1\| COG0177: Predicted EndoIII-related endonuclease [Actinobacillus pleur...	246.0	[0..2]	[210..1]
gi\|28202547, gi\|... - gi\|28210111\|ref\|NP_781055.1\| endonuclease III [Clostridium tetani E88], gi\|28202547\|gb\|AAO34992.1\| e...	245.0	[0..2]	[208..1]
gi\|88777366, gi\|... - gi\|88799935\|ref\|ZP_01115507.1\| endonuclease III [Reinekea sp. MED297], gi\|88777366\|gb\|EAR08569.1\| en...	245.0	[0..2]	[211..1]

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Predicted Domain #1

Region A:
Residues: [1-219]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MLSNKQTVLC IEEMAKMFPA AHCELVHKNT FELLVAVVLS AQCTDVLVNR VTASLFEKYH  60
   61 SPEDYLAVPL EELMEDIRSI GLYRNKAKNI QGLSEKILTE FNGEVPKTHA ELESLPGVGR 120
  121 KTANVVLSVG FGVPAIAVDT HVERISKRLG ICRWKDSVVE VEETLKRKLP KELWSDAHHY 180
  181 MIFFGRYHCK ARNPECPTCP LLYLCREGKK QAKVRGFDG

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	64.69897
Match:	1ornA
Description:	Endonuclease III
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: