YRC Public Data Repository - Protein Structure Prediction

Protein:	NTG2
Organism:	Saccharomyces cerevisiae
Length:	380 amino acids
Reference:	Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076

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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 NTG2.

Description	E-value	Query Range	Subject Range
NTH2_YEAST - Endonuclease III homolog 2 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=NTG2 PE=1 SV=... NTG2 - DNA N-glycosylase and apurinic/apyrimidinic (AP) lyase involved in base excision repair, localizes t... gi\|151945590 - gi\|151945590\|gb\|EDN63831.1\| endonuclease III DNA base excision repair N-glycosylase [Saccharomyces c...	2.0E-95	[1..380]	[1..380]
gi\|17380754, gi\|... - gi\|20259623\|gb\|AAM14168.1\| putative endonuclease [Arabidopsis thaliana], gi\|17380754\|gb\|AAL36207.1\| ...	5.0E-76	[11..342]	[38..361]
gi\|229903773, gi... - gi\|229903773\|ref\|ZP_04518886.1\| adenine DNA glycosylase [Yersinia pestis Nepal516], gi\|229679543\|gb\|... gi\|15979021, gi\|... - gi\|218928123\|ref\|YP_002345998.1\| adenine DNA glycosylase [Yersinia pestis CO92], gi\|16121255\|ref\|NP_... gi\|25292160 - pir\|\|AH0116 A/G-specific adenine glycosylase (EC 3.2.2.-) [imported] - Yersinia pestis (strain CO92) gi\|149290654, gi... - gi\|149367040\|ref\|ZP_01889073.1\| A/G-specific adenine glycosylase [Yersinia pestis CA88-4125], gi\|149... gi\|229837648, gi... - gi\|229837648\|ref\|ZP_04457810.1\| adenine DNA glycosylase [Yersinia pestis Pestoides A], gi\|229704336\|... gi\|229842567, gi... - gi\|229842567\|ref\|ZP_04462722.1\| adenine DNA glycosylase [Yersinia pestis biovar Orientalis str. Indi... gi\|229697238, gi... - gi\|229840872\|ref\|ZP_04461031.1\| adenine DNA glycosylase [Yersinia pestis biovar Orientalis str. PEXU...	8.0E-64	[130..379]	[12..251]
gi\|227008550, gi... - gi\|227080662\|ref\|YP_002809213.1\| A/G-specific adenine glycosylase [Vibrio cholerae M66-2], gi\|227008... gi\|121728580, gi... - gi\|121728580\|ref\|ZP_01681601.1\| A/G-specific adenine glycosylase [Vibrio cholerae V52], gi\|121629136... gi\|15640479, gi\|... - gi\|9654877\|gb\|AAF93625.1\| A/G-specific adenine glycosylase [Vibrio cholerae O1 biovar El Tor str. N1... gi\|11354352 - pir\|\|D82320 A/G-specific adenine glycosylase VC0452 [imported] - Vibrio cholerae (strain N16961 sero... gi\|125618186 - gi\|125618186\|gb\|EAZ46730.1\| A/G-specific adenine glycosylase [Vibrio cholerae MO10] gi\|153224226, gi... - gi\|153224226\|ref\|ZP_01954309.1\| A/G-specific adenine glycosylase [Vibrio cholerae MAK 757], gi\|12411... gi\|153823186, gi... - gi\|153823186\|ref\|ZP_01975853.1\| A/G-specific adenine glycosylase [Vibrio cholerae B33], gi\|126519312... gi\|153819148, gi... - gi\|153819148\|ref\|ZP_01971815.1\| A/G-specific adenine glycosylase [Vibrio cholerae NCTC 8457], gi\|126...	3.0E-63	[127..379]	[7..249]
MUTY_ECOLI - A/G-specific adenine glycosylase (EC 3.2.2.-) - Escherichia coli EG10627 - adenine DNA glycosylase / Adenine DNA glycosylase, G-A mismatched DNA repair; 2-hydroxyadenine glyco... gi\|89109738, gi\|... - gi\|89109738\|ref\|AP_003518.1\| adenine DNA glycosylase [Escherichia coli str. K-12 substr. W3110], gi\|... gi\|169753726, gi... - gi\|170018798\|ref\|YP_001723752.1\| adenine DNA glycosylase [Escherichia coli ATCC 8739], gi\|169753726\|... gi\|75515259 - gi\|75515259\|ref\|ZP_00737443.1\| COG1194: A/G-specific DNA glycosylase [Escherichia coli 53638] gi\|169890348, gi... - gi\|170082513\|ref\|YP_001731833.1\| adenine DNA glycosylase [Escherichia coli str. K-12 substr. DH10B],... gi\|75196910 - gi\|75196910\|ref\|ZP_00706980.1\| COG1194: A/G-specific DNA glycosylase [Escherichia coli HS] EG10627 - adenine DNA glycosylase / Adenine DNA glycosylase, G-A mismatched DNA repair; 2-hydroxyadenine glyco... gi\|124526139, gi... - gi\|124526139\|ref\|ZP_01698144.1\| A/G-specific adenine glycosylase [Escherichia coli B], gi\|124502243\|... gi\|238859929, gi... - gi\|238902083\|ref\|YP_002927879.1\| adenine DNA glycosylase [Escherichia coli BW2952], gi\|238859929\|gb\|... gi\|242378487, gi... - gi\|251786214\|ref\|YP_003000518.1\| hypothetical protein B21_02754 [Escherichia coli BL21], gi\|24237848... gi\|254289631, gi... - gi\|254289631\|ref\|YP_003055379.1\| adenine DNA glycosylase [Escherichia coli BL21(DE3)], gi\|253978938\|... gi\|253974772, gi... - gi\|254162871\|ref\|YP_003045979.1\| adenine DNA glycosylase [Escherichia coli B str. REL606], gi\|253974...	3.0E-62	[130..379]	[12..251]
gi\|213609558 - gi\|213609558\|ref\|ZP_03369384.1\| adenine DNA glycosylase [Salmonella enterica subsp. enterica serovar... gi\|213425494 - gi\|213425494\|ref\|ZP_03358244.1\| adenine DNA glycosylase [Salmonella enterica subsp. enterica serovar... gi\|214000587 - gi\|214000587\|ref\|ZP_03411322.1\| adenine DNA glycosylase [Salmonella enterica subsp. enterica serovar... gi\|213850187 - gi\|213850187\|ref\|ZP_03381085.1\| adenine DNA glycosylase [Salmonella enterica subsp. enterica serovar... gi\|213646177 - gi\|213646177\|ref\|ZP_03376230.1\| adenine DNA glycosylase [Salmonella enterica subsp. enterica serovar... gi\|16761886 - gi\|16761886\|ref\|NP_457503.1\| adenine DNA glycosylase [Salmonella enterica subsp. enterica serovar Ty... gi\|25292161, gi\|... - gi\|25292161\|pir\|\|AG0879 A/G-specific adenine glycosylase STY3265 [imported] - Salmonella enterica su... gi\|29143373, gi\|... - gi\|29143373\|ref\|NP_806715.1\| adenine DNA glycosylase [Salmonella enterica subsp. enterica serovar Ty...	1.0E-61	[130..379]	[12..252]

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Predicted Domain #1

Region A:
Residues: [1-97]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MREESRSRKR KHIPVDIEEV EVRSKYFKKN ERTVELVKEN KINKDLQNYG GVNIDWIKAL  60
   61 KPIEYFEWIE SRTCDDPRTW GRPITKEEMI NDSGAKV

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #2

Region A:
Residues: [98-140]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PESFLPIYNR VRLMRSKVKT PVDAMGCSMI PVLVSNKCGI PSE

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [250-380]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GYLTLQKGWG LIAGICVDVH VHRLCKMWNW VDPIKCKTAE HTRKELQVWL PHSLWYEINT  60
   61 VLVGFGQLIC MARGKRCDLC LANDVCNARN EKLIESSKFH QLEDKEDIEK VYSHWLDTVT 120
  121 NGITTERHKK K

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	170.927757
Match:	2abk__
Description:	Endonuclease III
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
DNA N-glycosylase activity	4.8124964619976	bayes_pls_golite062009
hydrolase activity, hydrolyzing N-glycosyl compounds	4.26870112679392	bayes_pls_golite062009
DNA-(apurinic or apyrimidinic site) lyase activity	3.71152530486175	bayes_pls_golite062009
oxidized base lesion DNA N-glycosylase activity	2.49872706126491	bayes_pls_golite062009
hydrolase activity	2.39042189031819	bayes_pls_golite062009
hydrolase activity, acting on glycosyl bonds	2.24777884454113	bayes_pls_golite062009
catalytic activity	2.13345932727422	bayes_pls_golite062009
alkylbase DNA N-glycosylase activity	1.5832578018127	bayes_pls_golite062009
DNA binding	1.44394874535958	bayes_pls_golite062009
8-oxo-7,8-dihydroguanine DNA N-glycosylase activity	1.41538804527379	bayes_pls_golite062009
nucleic acid binding	1.36800347239439	bayes_pls_golite062009
damaged DNA binding	1.32391480975295	bayes_pls_golite062009
binding	1.15752946565805	bayes_pls_golite062009
DNA-3-methyladenine glycosylase I activity	1.06383943982125	bayes_pls_golite062009
oxidized pyrimidine base lesion DNA N-glycosylase activity	0.889914753262716	bayes_pls_golite062009
uracil DNA N-glycosylase activity	0.879508131574476	bayes_pls_golite062009
oxidized purine base lesion DNA N-glycosylase activity	0.789032002944782	bayes_pls_golite062009
purine-specific mismatch base pair DNA N-glycosylase activity	0.68578837518217	bayes_pls_golite062009
mismatch base pair DNA N-glycosylase activity	0.661651574677137	bayes_pls_golite062009
transcription regulator activity	0.493252955870142	bayes_pls_golite062009
structure-specific DNA binding	0.32094102946624	bayes_pls_golite062009
protein binding	0.0921713980805489	bayes_pls_golite062009
carbon-oxygen lyase activity	0.0676784802238829	bayes_pls_golite062009
double-stranded DNA binding	0.0420287478494503	bayes_pls_golite062009

Predicted Domain #3

Region A:
Residues: [141-249]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KVDPKNFRLQ FLIGTMLSAQ TRDERMAQAA LNITEYCLNT LKIAEGITLD GLLKIDEPVL  60
   61 ANLIRCVSFY TRKANFIKRT AQLLVDNFDS DIPYDIEGIL SLPGVGPKM

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	170.927757
Match:	2abk__
Description:	Endonuclease III
Matching Structure (courtesy of the PDB):

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: