YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24347039, gi\|...
Organism:	Shewanella oneidensis MR-1
Length:	744 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|24347039, gi|....

Description	E-value	Query Range	Subject Range
gi\|55833080 - gi\|55833080\|gb\|AAV66957.1\| PtsP [Pseudomonas fluorescens]	563.0	[0..1]	[744..1]
gi\|68347483, gi\|... - gi\|70733184\|ref\|YP_262957.1\| phosphoenolpyruvate-protein phosphotransferase PtsP [Pseudomonas fluore...	560.0	[0..1]	[744..1]
tr\|I7C1M8\|I7C1M8... - PTSINtr with GAF domain, PtsP OS=Pseudomonas putida (strain DOT-T1E) GN=ptsP PE=3 SV=1 gi\|82738262, gi\|... - gi\|82738262\|ref\|ZP_00901098.1\| Phosphoenolpyruvate-protein phosphotransferase [Pseudomonas putida F1... gi\|26991821, gi\|... - gi\|26991821\|ref\|NP_747246.1\| PTSINtr with GAF domain, PtsP [Pseudomonas putida KT2440], gi\|24986935\|...	558.0	[0..1]	[743..1]
gi\|77461598, gi\|... - gi\|77461598\|ref\|YP_351105.1\| phosphoenolpyruvate-protein phosphotransferase PtsP [Pseudomonas fluore...	558.0	[0..1]	[744..1]
gi\|95113135, gi\|... - gi\|95113135\|emb\|CAK17863.1\| phosphoenolpyruvate-protein phosphotransferase [Pseudomonas entomophila ... gi\|95113135 - gi\|95113135\|emb\|CAK17863.1\| phosphoenolpyruvate-protein phosphotransferase [Pseudomonas entomophila ...	556.0	[0..1]	[743..1]
gi\|226946828, gi... - gi\|67155494\|ref\|ZP_00417122.1\| Phosphoenolpyruvate-protein phosphotransferase [Azotobacter vinelandi... gi\|67155494, gi\|... - gi\|67155494\|ref\|ZP_00417122.1\| Phosphoenolpyruvate-protein phosphotransferase [Azotobacter vinelandi...	556.0	[0..1]	[744..1]
gi\|150959901, gi... - gi\|94414829\|ref\|ZP_01294683.1\| hypothetical protein PaerP_01003409 [Pseudomonas aeruginosa PA7], gi\|...	553.0	[0..1]	[744..1]
gi\|3641832 - gi\|3641832\|emb\|CAA74995.1\| enzyme I [Azotobacter vinelandii]	553.0	[0..1]	[744..1]
gi\|115589286, gi... - gi\|32043508\|ref\|ZP_00140770.1\| COG3605: Signal transduction protein containing GAF and PtsI domains ... gi\|225166541 - gi\|225166541\|gb\|ACN81328.1\| phosphoenolpyruvate-protein phosphotransferase [Pseudomonas sp. M18] gi\|4545248, gi\|1... - gi\|4545248\|gb\|AAD22459.1\|AF116285_2 phosphoenolpyruvate-protein phosphotransferase PtsP [Pseudomonas... gi\|218769301, gi... - gi\|218889078\|ref\|YP_002437942.1\| phosphoenolpyruvate-protein phosphotransferase PtsP [Pseudomonas ae... gi\|15595534, gi\|... - gi\|9946185\|gb\|AAG03726.1\|AE004471_9 phosphoenolpyruvate-protein phosphotransferase PtsP [Pseudomonas... gi\|126169358, gi... - gi\|84318480\|ref\|ZP_00966903.1\| COG3605: Signal transduction protein containing GAF and PtsI domains ... gi\|126196814, gi... - gi\|84324421\|ref\|ZP_00972479.1\| COG3605: Signal transduction protein containing GAF and PtsI domains ... gi\|107099321 - gi\|107099321\|ref\|ZP_01363239.1\| hypothetical protein PaerPA_01000333 [Pseudomonas aeruginosa PACS2]	552.0	[0..1]	[744..1]
gi\|71554659, gi\|... - gi\|71734106\|ref\|YP_276966.1\| phosphoenolpyruvate-protein phosphotransferase PtsP [Pseudomonas syring...	552.0	[0..1]	[744..1]

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Predicted Domain #1

Region A:
Residues: [1-193]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MLNTLRDITQ AVASAHSLET ALEVLVSSTK AAMETQCCSV YILEQQELVL SATDGLEKSA  60
   61 VGRVRMPLTQ GLVGLAAERE EAVNLADARL HPRFKLFPEV AEEEYRAFLA VPIIYQKAVV 120
  121 GVIVVQQASA RQFSEGEEAF LMTLAAQLAM AIRGLKQKAQ VSSLHQQILF QGTSASSGIA 180
  181 IAHAFVLGGE ISL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	19.0
Match:	1mc0A
Description:	3',5'-cyclic nucleotide phosphodiesterase 2A, GAF A and GAF B domains
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
transcription regulator activity	2.29241390329225	bayes_pls_golite062009
binding	2.02315964268807	bayes_pls_golite062009
DNA binding	1.99643127799452	bayes_pls_golite062009
nucleic acid binding	1.93476839291455	bayes_pls_golite062009
transcription factor activity	1.83436761962516	bayes_pls_golite062009
protein binding	0.321233885659081	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [194-744]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 EQPDIRCEDI VLESNRLVAA MGRCKEAIGA LSQRFDREQD EEVASIFNAL QLLLDDASLG  60
   61 GEYAREVLLG WEAESAVSRV SLRYIQQFLA MEDPYLKERA SDIRDLGQKV LRQLIEPERL 120
  121 ELEPDKPVIL VTKEADATML AEFPRQKLAG IVTELGGVNS HAAILARALG VPAITGVEQL 180
  181 LSADIDQKLL VVNASRGQLM VSPSPAIVSE YRSLISAQKA LQRQYAQELT LPSVMLDGKR 240
  241 IRLYLNAGLL SGVASEIAEG ADGIGLYRTE IPFMLQQRFP SESEQVKVYQ QVLSAASGRP 300
  301 VVMRTLDVGG DKPLPYFPIK EDNPFLGWRG IRLSLDHPEL FLVQLRAMLQ AGAEGKQLSI 360
  361 LLPMVSNLDE IDQALAYLEQ AHVELKNDVN SNIKMPRIGI MLEVPAMLYQ LDEVAKRVDF 420
  421 VSVGSNDLTQ YLLAVDRNNP RVSSLFDSYH PGILRALHQA RLDCEYHHLD ISICGELAGE 480
  481 PMGAILLVAM GYHQLSMNQG SLARINYLLR RVSGEDLAQL LAQALSLSNG FQVRELVKEY 540
  541 LTLQGLVTIL N

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	149.0
Match:	2hroA
Description:	No description for 2hroA was found.

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: