YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|39996550, gi\|...
Organism:	Geobacter sulfurreducens PCA
Length:	209 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|39996550, gi|....

Description	E-value	Query Range	Subject Range
gi\|28202547, gi\|... - gi\|28210111\|ref\|NP_781055.1\| endonuclease III [Clostridium tetani E88], gi\|28202547\|gb\|AAO34992.1\| e...	241.0	[0..2]	[203..8]
gi\|255649074 - gi\|255649074\|ref\|ZP_05395976.1\| endonuclease III [Clostridium difficile QCD-37x79] gi\|254974165 - gi\|254974165\|ref\|ZP_05270637.1\| endonuclease III [Clostridium difficile QCD-66c26] gi\|90576043, gi\|... - gi\|90576043\|ref\|ZP_01232513.1\| hypothetical protein CdifQ_02000558 [Clostridium difficile QCD-32g58]... gi\|255091566 - gi\|255091566\|ref\|ZP_05321044.1\| endonuclease III [Clostridium difficile CIP 107932] gi\|255313292 - gi\|255313292\|ref\|ZP_05354875.1\| endonuclease III [Clostridium difficile QCD-76w55] gi\|255515983 - gi\|255515983\|ref\|ZP_05383659.1\| endonuclease III [Clostridium difficile QCD-97b34]	238.0	[0..2]	[208..145]
gi\|25292136 - pir\|\|G96984 probable endonuclease, gene nth [imported] - Clostridium acetobutylicum gi\|15893977, gi\|... - gi\|15893977\|ref\|NP_347326.1\| endonuclease, gene nth [Clostridium acetobutylicum ATCC 824], gi\|150235...	237.0	[0..2]	[208..8]
gi\|70732175, gi\|... - gi\|70732175\|ref\|YP_261931.1\| endonuclease III [Pseudomonas fluorescens Pf-5], gi\|68346474\|gb\|AAY9408...	236.0	[0..1]	[205..7]
gi\|77384737, gi\|... - gi\|77460734\|ref\|YP_350241.1\| DNA-(apurinic or apyrimidinic site) lyase / endonuclease III [Pseudomon...	236.0	[0..1]	[205..7]
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...	235.0	[0..1]	[207..7]
gi\|104780422, gi... - gi\|95109409\|emb\|CAK14109.1\| endonuclease III [Pseudomonas entomophila L48], gi\|104780422\|ref\|YP_6069... gi\|95109409 - gi\|95109409\|emb\|CAK14109.1\| endonuclease III [Pseudomonas entomophila L48]	235.0	[0..1]	[205..7]
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...	235.0	[0..1]	[207..7]
gi\|150841122, gi... - gi\|75437253\|ref\|ZP_00733403.1\| endonuclease III [Actinobacillus succinogenes 130Z], gi\|74275861\|gb\|E...	235.0	[0..1]	[207..7]
gi\|20808188 - gi\|20808188\|ref\|NP_623359.1\| predicted EndoIII-related endonuclease [Thermoanaerobacter tengcongensi... gi\|20808188, gi\|... - gi\|20808188\|ref\|NP_623359.1\| EndoIII-related endonuclease [Thermoanaerobacter tengcongensis MB4], gi...	234.0	[0..1]	[208..9]

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Predicted Domain #1

Region A:
Residues: [1-209]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MAGLAEAVKQ WPSPAVTIVS QREGNPFKVL VSCILSLRTQ DRTTGPASER LFALADTPAA  60
   61 MVRLSKDDIE KAIYPVGFYH TKAEQILEIC RVLLERYDGG VPDELDELLA FKGVGRKTAN 120
  121 LVITLGFGKP GICVDTHVHR ICNRWGYIRT KTPEQTEFSL RRILPHRYWL VINDYLVTFG 180
  181 QNHCTPVSPR CSTCVLAQWC DCVGVAKHR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	60.154902
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: