YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|229837648, gi...
Organism:	Yersinia pestis Pestoides A
Length:	371 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|229837648, gi....

Description	E-value	Query Range	Subject Range
gi\|22127215, gi\|... - gi\|22127215\|ref\|NP_670638.1\| adenine DNA glycosylase [Yersinia pestis KIM], gi\|21960283\|gb\|AAM86889.... gi\|45443228, gi\|... - gi\|45443228\|ref\|NP_994767.1\| adenine DNA glycosylase [Yersinia pestis biovar Microtus str. 91001], g...	0.0	[1..371]	[45..415]
gi\|152958814, gi... - gi\|77630200\|ref\|ZP_00792786.1\| COG1194: A/G-specific DNA glycosylase [Yersinia pseudotuberculosis IP...	0.0	[1..371]	[1..371]
Q666M4\|Q666M4_YERPS - A/G-specific adenine glycosylase. - Yersinia pseudotuberculosis gi\|51590816, gi\|... - gi\|51597534\|ref\|YP_071725.1\| adenine DNA glycosylase [Yersinia pseudotuberculosis IP 32953], gi\|5159...	0.0	[1..371]	[1..371]
gi\|167421991, gi... - gi\|167421991\|ref\|ZP_02313744.1\| A/G-specific adenine glycosylase [Yersinia pestis biovar Orientalis ... gi\|167050802, gi... - gi\|167400094\|ref\|ZP_02305612.1\| A/G-specific adenine glycosylase [Yersinia pestis biovar Antiqua str... gi\|166206169, gi... - gi\|166212877\|ref\|ZP_02238912.1\| A/G-specific adenine glycosylase [Yersinia pestis biovar Antiqua str... gi\|165990761, gi... - gi\|166010275\|ref\|ZP_02231173.1\| A/G-specific adenine glycosylase [Yersinia pestis biovar Antiqua str... gi\|167426696, gi... - gi\|167426696\|ref\|ZP_02318449.1\| A/G-specific adenine glycosylase [Yersinia pestis biovar Mediaevalis... gi\|108813310, gi... - gi\|108813310\|ref\|YP_649077.1\| adenine DNA glycosylase [Yersinia pestis Nepal516], gi\|108776958\|gb\|AB... gi\|145597869, gi... - gi\|145597869\|ref\|YP_001161945.1\| adenine DNA glycosylase [Yersinia pestis Pestoides F], gi\|145209565... gi\|108806309, gi... - gi\|108806309\|ref\|YP_650225.1\| adenine DNA glycosylase [Yersinia pestis Antiqua], gi\|108778222\|gb\|ABG... gi\|165914809, gi... - gi\|89102125\|ref\|ZP_01174785.1\| COG1194: A/G-specific DNA glycosylase [Yersinia pestis biovar Orienta... gi\|165925102, gi... - gi\|165925102\|ref\|ZP_02220934.1\| A/G-specific adenine glycosylase [Yersinia pestis biovar Orientalis ...	0.0	[1..371]	[2..372]
gi\|77633207, gi\|... - gi\|77633207\|ref\|ZP_00795351.1\| COG1194: A/G-specific DNA glycosylase [Yersinia pestis Angola], gi\|16...	0.0	[1..371]	[2..372]
gi\|91073918, gi\|... - gi\|91212344\|ref\|YP_542330.1\| adenine DNA glycosylase [Escherichia coli UTI89], gi\|91073918\|gb\|ABE087... gi\|226899425, gi... - gi\|237706385\|ref\|ZP_04536866.1\| adenine DNA glycosylase [Escherichia sp. 3_2_53FAA], gi\|226899425\|gb...	1.0E-92	[1..349]	[11..359]
gi\|194424280, gi... - gi\|83587641\|ref\|ZP_00926268.1\| COG1194: A/G-specific DNA glycosylase [Escherichia coli 101-1], gi\|19...	2.0E-92	[1..349]	[1..349]
gi\|115514312, gi... - gi\|117625188\|ref\|YP_854176.1\| adenine DNA glycosylase [Escherichia coli APEC O1], gi\|115514312\|gb\|AB... gi\|218366721, gi... - gi\|218559952\|ref\|YP_002392865.1\| adenine DNA glycosylase [Escherichia coli S88], gi\|218366721\|emb\|CA...	3.0E-92	[1..349]	[1..349]
gi\|110616421, gi... - gi\|110806873\|ref\|YP_690393.1\| adenine DNA glycosylase [Shigella flexneri 5 str. 8401], gi\|110616421\|...	3.0E-92	[1..349]	[11..359]
gi\|189000578, gi... - gi\|189000578\|gb\|EDU69564.1\| A/G-specific adenine glycosylase [Escherichia coli O157:H7 str. EC4076],... gi\|189374187, gi... - gi\|189374187\|gb\|EDU92603.1\| A/G-specific adenine glycosylase [Escherichia coli O157:H7 str. EC869], ... gi\|189379791, gi... - gi\|189379791\|gb\|EDU98207.1\| A/G-specific adenine glycosylase [Escherichia coli O157:H7 str. EC508], ... gi\|195937100 - gi\|195937100\|ref\|ZP_03082482.1\| adenine DNA glycosylase [Escherichia coli O157:H7 str. EC4024] gi\|188017895, gi... - gi\|188017895\|gb\|EDU56017.1\| A/G-specific adenine glycosylase [Escherichia coli O157:H7 str. EC4113],... gi\|189358556, gi... - gi\|189358556\|gb\|EDU76975.1\| A/G-specific adenine glycosylase [Escherichia coli O157:H7 str. EC4401],... gi\|168766969, gi... - gi\|189363704\|gb\|EDU82123.1\| A/G-specific adenine glycosylase [Escherichia coli O157:H7 str. EC4486],... gi\|254594314, gi... - gi\|254794914\|ref\|YP_003079751.1\| adenine DNA glycosylase [Escherichia coli O157:H7 str. TW14359], gi... gi\|168773399, gi... - gi\|187770880\|gb\|EDU34724.1\| A/G-specific adenine glycosylase [Escherichia coli O157:H7 str. EC4196],... gi\|209759948, gi... - pir\|\|H85953 adenine glycosylase, GC to TA transversions [imported] - Escherichia coli (strain O157:H... gi\|15803500, gi\|... - gi\|15803500\|ref\|NP_289533.1\| adenine DNA glycosylase [Escherichia coli O157:H7 EDL933], gi\|12517510\|... gi\|13363309, gi\|... - gi\|15833091\|ref\|NP_311864.1\| adenine glycosylase [Escherichia coli O157:H7], gi\|13363309\|dbj\|BAB3726... gi\|13363309, gi\|... - gi\|15833091\|ref\|NP_311864.1\| adenine DNA glycosylase [Escherichia coli O157:H7 str. Sakai], gi\|13363... gi\|217320136, gi... - gi\|217327769\|ref\|ZP_03443852.1\| A/G-specific adenine glycosylase [Escherichia coli O157:H7 str. TW14... gi\|208726142, gi... - gi\|208806341\|ref\|ZP_03248678.1\| A/G-specific adenine glycosylase [Escherichia coli O157:H7 str. EC42... gi\|208812668, gi... - gi\|208812668\|ref\|ZP_03253997.1\| A/G-specific adenine glycosylase [Escherichia coli O157:H7 str. EC40... gi\|208820767, gi... - gi\|208820767\|ref\|ZP_03261087.1\| A/G-specific adenine glycosylase [Escherichia coli O157:H7 str. EC40... gi\|209157367, gi... - gi\|209395967\|ref\|YP_002272442.1\| A/G-specific adenine glycosylase [Escherichia coli O157:H7 str. EC4...	4.0E-92	[1..349]	[1..349]

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Predicted Domain #1

Region A:
Residues: [1-214]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MQAQQFAHVV LDWYQHFGRK TLPWQLDKTP YQVWLSEVML QQTQVATVIP YFQRFMLRFP  60
   61 DIQALAAAPL DDVLHLWTGL GYYARARNLH KAAQMVVEHH QGEFPTTFDQ ILALPGIGRS 120
  121 TAGAILSLSL GQHFPILDGN VKRVLARCYA VDGWPGKKEV EGRLWQISED VTPANGVGQF 180
  181 NQAMMDLGAM VCTRSKPKCE LCPLNIGCMA YANH

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	63.221849
Match:	1kg6A
Description:	Catalytic domain of MutY
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
8-oxo-7,8-dihydroguanine DNA N-glycosylase activity	2.21048599823382	bayes_pls_golite062009
hydrolase activity, acting on glycosyl bonds	2.18053745735048	bayes_pls_golite062009
catalytic activity	2.13345932727422	bayes_pls_golite062009
damaged DNA binding	2.00388798014411	bayes_pls_golite062009
nucleic acid binding	1.77735453133546	bayes_pls_golite062009
DNA binding	1.70910448624199	bayes_pls_golite062009
alkylbase DNA N-glycosylase activity	1.5832578018127	bayes_pls_golite062009
oxidized purine base lesion DNA N-glycosylase activity	1.32985950765371	bayes_pls_golite062009
oxidized pyrimidine base lesion DNA N-glycosylase activity	1.2016453685638	bayes_pls_golite062009
binding	1.15752946565805	bayes_pls_golite062009
DNA-3-methyladenine glycosylase I activity	1.06383943982125	bayes_pls_golite062009
transcription regulator activity	0.953912155797942	bayes_pls_golite062009
uracil DNA N-glycosylase activity	0.879508131574476	bayes_pls_golite062009
structure-specific DNA binding	0.85419760398899	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
double-stranded DNA binding	0.57099109384393	bayes_pls_golite062009
transcription factor activity	0.181268475863531	bayes_pls_golite062009
protein binding	0.0921713980805489	bayes_pls_golite062009
carbon-oxygen lyase activity	0.0676784802238829	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [215-371]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SWARYPGKKP KQTLPEKTAW FLLMQNGSQV WLEQRPPVGL WGGLFCFPQF AEQEELIHWL  60
   61 QKQGIPANET QQLTAFRHTF SHFHLDIVPI WLNTASVRGC MDDGAGLWYN LAQPPSVGLA 120
  121 APVERLLHQL LKDPLAKDEL TQQQLTKQSP TQPALFD

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	16.522879
Match:	1vk6A
Description:	Crystal structure of NADH pyrophosphatase (1790429) from Escherichia coli k12 at 2.20 A resolution
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: