YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|124526139, gi...
Organism:	Escherichia coli B
Length:	350 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|124526139, gi....

Description	E-value	Query Range	Subject Range
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...	329.0	[0..1]	[350..11]
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...	327.0	[0..1]	[350..1]
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...	327.0	[0..1]	[350..1]
gi\|194424280, gi... - gi\|83587641\|ref\|ZP_00926268.1\| COG1194: A/G-specific DNA glycosylase [Escherichia coli 101-1], gi\|19...	327.0	[0..1]	[350..1]
gi\|74313630, gi\|... - gi\|74313630\|ref\|YP_312049.1\| adenine DNA glycosylase [Shigella sonnei Ss046], gi\|73857107\|gb\|AAZ8981...	327.0	[0..1]	[350..1]
gi\|75187685 - gi\|75187685\|ref\|ZP_00700952.1\| COG1194: A/G-specific DNA glycosylase [Escherichia coli E24377A] gi\|81246827, gi\|... - gi\|82545416\|ref\|YP_409363.1\| adenine DNA glycosylase [Shigella boydii Sb227], gi\|81246827\|gb\|ABB6753... gi\|209920421, gi... - gi\|209920421\|ref\|YP_002294505.1\| adenine DNA glycosylase [Escherichia coli SE11], gi\|209913680\|dbj\|B...	327.0	[0..1]	[350..1]
gi\|110616421, gi... - gi\|110806873\|ref\|YP_690393.1\| adenine DNA glycosylase [Shigella flexneri 5 str. 8401], gi\|110616421\|...	326.0	[0..1]	[350..11]
gi\|82778267, gi\|... - gi\|82778267\|ref\|YP_404616.1\| adenine DNA glycosylase [Shigella dysenteriae Sd197], gi\|81242415\|gb\|AB...	326.0	[0..1]	[350..1]
gi\|192959211, gi... - gi\|75239469\|ref\|ZP_00723440.1\| COG1194: A/G-specific DNA glycosylase [Escherichia coli E110019], gi\|... gi\|190902003, gi... - gi\|75228917\|ref\|ZP_00715514.1\| COG1194: A/G-specific DNA glycosylase [Escherichia coli B7A], gi\|1911... gi\|218362288, gi... - gi\|218555520\|ref\|YP_002388433.1\| adenine DNA glycosylase [Escherichia coli IAI1], gi\|218362288\|emb\|C... gi\|218696559, gi... - gi\|218696559\|ref\|YP_002404226.1\| adenine DNA glycosylase [Escherichia coli 55989], gi\|218353291\|emb\|...	326.0	[0..1]	[350..1]
gi\|75241243, gi\|... - gi\|75241243\|ref\|ZP_00725105.1\| COG1194: A/G-specific DNA glycosylase [Escherichia coli F11], gi\|1911... gi\|218691085, gi... - gi\|218691085\|ref\|YP_002399297.1\| adenine DNA glycosylase [Escherichia coli ED1a], gi\|218428649\|emb\|C... gi\|110643110, gi... - gi\|110643110\|ref\|YP_670840.1\| adenine DNA glycosylase [Escherichia coli 536], gi\|110344702\|gb\|ABG709...	325.0	[0..1]	[350..1]

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Predicted Domain #1

Region A:
Residues: [1-220]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MQASQFSAQV LDWYDKYGRK TLPWQIDKTP YKVWLSEVML QQTQVATVIP YFERFMARFP  60
   61 TVTDLANAPL DEVLHLWTGL GYYARARNLH KAAQQVATLH GGKFPETFEE VAALPGVGRS 120
  121 TAGAILSLSL GKHFPILDGN VKRVLARCYA VSGWPGKKEV ENKLWSLSEQ VTPAVGVERF 180
  181 NQAMMDLGAM ICTRSKPKCS LCPLQNGCIA AANNSWALYP

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	59.39794
Match:	1kg2A
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: [221-350]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GKKPKQTLPE RTGYFLLLQH EDEVLLAQRP PSGLWGGLYC FPQFADEESL RQWLAQRQIA  60
   61 ADNLTQLTAF RHTFSHFHLD IVPMWLPVSS FTGCMDEGNA LWYNLAQPPS VGLAAPVERL 120
  121 LQQLRTGAPV

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	15.69897
Match:	1mutA
Description:	NMR STUDY OF MUTT ENZYME, A NUCLEOSIDE TRIPHOSPHATE PYROPHOSPHOHYDROLASE
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
MutLbeta complex binding	3.54991362477413	bayes_pls_golite062009
MutSbeta complex binding	3.54991362477413	bayes_pls_golite062009
hydrolase activity	1.97832429767892	bayes_pls_golite062009
catalytic activity	1.49075808737475	bayes_pls_golite062009
nucleic acid binding	1.06392208444166	bayes_pls_golite062009
binding	0.804982034963737	bayes_pls_golite062009
pyrophosphatase activity	0.546676461152337	bayes_pls_golite062009
inorganic cation transmembrane transporter activity	0.00783582682768413	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:

Predicted functions: