YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|25501439
Organism:	Clostridium acetobutylicum
Length:	295 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|25501439.

Description	E-value	Query Range	Subject Range
gi\|115251072, gi... - gi\|126699635\|ref\|YP_001088532.1\| AraC family transcription regulator [Clostridium difficile 630], gi... gi\|255101149 - gi\|255101149\|ref\|ZP_05330126.1\| AraC family transcription regulator [Clostridium difficile QCD-63q42...	176.0	[0..1]	[295..1]
gi\|254975611 - gi\|254975611\|ref\|ZP_05272083.1\| AraC family transcription regulator [Clostridium difficile QCD-66c26... gi\|255092999 - gi\|255092999\|ref\|ZP_05322477.1\| AraC family transcription regulator [Clostridium difficile CIP 10793... gi\|119635337, gi... - gi\|90574406\|ref\|ZP_01230906.1\| hypothetical protein CdifQ_02002158 [Clostridium difficile QCD-32g58]... gi\|255314740 - gi\|255314740\|ref\|ZP_05356323.1\| AraC family transcription regulator [Clostridium difficile QCD-76w55... gi\|255517414 - gi\|255517414\|ref\|ZP_05385090.1\| AraC family transcription regulator [Clostridium difficile QCD-97b34... gi\|255650524 - gi\|255650524\|ref\|ZP_05397426.1\| AraC family transcription regulator [Clostridium difficile QCD-37x79...	175.0	[0..1]	[295..1]
gi\|50590983, gi\|... - gi\|81097031\|ref\|ZP_00875347.1\| Helix-turn-helix, AraC type:Arac protein, arabinose-binding/dimerisat...	175.0	[0..1]	[289..1]
MSMR_STRMU - Msm operon regulatory protein OS=Streptococcus mutans serotype c (strain ATCC 700610 / UA159) GN=msm... MSMR_STRMU - Msm operon regulatory protein OS=Streptococcus mutans GN=msmR PE=4 SV=2 gi\|254997563 - gi\|254997563\|dbj\|BAH88164.1\| putative MSM operon regulatory protein [Streptococcus mutans NN2025]	171.0	[0..1]	[290..1]
gi\|455363 - gi\|455363\|gb\|AAA26932.1\| regulatory protein [Streptococcus mutans]	170.0	[0..1]	[290..1]
gi\|82746467, gi\|... - gi\|82746467\|ref\|ZP_00908973.1\| Helix-turn-helix, AraC type [Clostridium beijerincki NCIMB 8052], gi\|...	168.0	[0..1]	[283..1]
gi\|196198353, gi... - gi\|196252220\|ref\|ZP_03150881.1\| transcriptional regulator, AraC family [Clostridium thermocellum DSM... gi\|125974697, gi... - gi\|67875295\|ref\|ZP_00504718.1\| Helix-turn-helix, AraC type [Clostridium thermocellum ATCC 27405], gi...	165.0	[0..2]	[285..7]

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Predicted Domain #1

Region A:
Residues: [1-181]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNDKSTYFDR KSKKEDCFVD IFFKDDILNG ENFKRHWHEH LQIYYFTAGT AYLECAQNKF  60
   61 DVTTGSIAII NSNELHYLES HSNNLKFYTI RIEPTFLFSN KEDLLQTKYL APLALNRITF 120
  121 KNLIENDLQI LECIKTILKE YSSKNIGYEL AVKANIYQLI VYLLRGYVDK ILNENEFEER 180
  181 K

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	5.221849
Match:	1xjaA
Description:	Apo form of the Y31V mutant dimerization domain fragment of Escherichia coli regulatory protein AraC
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A:
Residues: [182-295]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 RILNKFQCVF RLIEEKYTEK LTLNELADCV NFSTHHFCRT FKQMTGKTTT DYINGIRLYK  60
   61 STNYLKQTDL NITEIAIKCG FDNNNYFSRL FKKHYDMTPT KYRKLYAGHF SKII

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	20.69897
Match:	1d5yA
Description:	Rob transcription factor, N-terminal domain; Rob transcription factor, C-terminal domain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
transcription regulator activity	3.57523737355937	bayes_pls_golite062009
DNA binding	3.00143272905695	bayes_pls_golite062009
nucleic acid binding	2.89825020286436	bayes_pls_golite062009
transcription factor activity	2.53664874743748	bayes_pls_golite062009
binding	1.68817361068715	bayes_pls_golite062009
sequence-specific DNA binding	0.46503550280898	bayes_pls_golite062009
RNA polymerase II transcription factor activity	0.24108783215685	bayes_pls_golite062009
transcription repressor activity	0.20862059645422	bayes_pls_golite062009
protein binding	0.111941607625758	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: