YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|241879650, gi...
Organism:	Desulfovibrio vulgaris RCH1
Length:	326 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|241879650, gi....

Description	E-value	Query Range	Subject Range
gi\|228655231, gi... - gi\|229128372\|ref\|ZP_04257353.1\| AraC-family transcriptional regulator [Bacillus cereus BDRD-Cer4], g... gi\|29896701, gi\|... - gi\|30021148\|ref\|NP_832779.1\| AraC family transcriptional regulator [Bacillus cereus ATCC 14579], gi\|...	3.0E-59	[1..325]	[1..295]
gi\|88934446, gi\|... - gi\|88934446\|ref\|ZP_01140089.1\| Helix-turn-helix, AraC type [Geobacter uraniumreducens Rf4], gi\|88918...	1.0E-58	[3..324]	[49..333]
gi\|29347314, gi\|... - gi\|29347314\|ref\|NP_810817.1\| transcriptional regulator, AraC-type [Bacteroides thetaiotaomicron VPI-...	4.0E-57	[2..324]	[3..285]
gi\|49480052, gi\|... - gi\|49480052\|ref\|YP_037140.1\| AraC family transcriptional regulator [Bacillus thuringiensis serovar k...	5.0E-57	[1..325]	[1..295]
gi\|254738064 - gi\|254738064\|ref\|ZP_05195767.1\| transcriptional regulator, AraC family protein [Bacillus anthracis s... gi\|254723009 - gi\|254723009\|ref\|ZP_05184797.1\| transcriptional regulator, AraC family protein [Bacillus anthracis s... gi\|229604371, gi... - gi\|229604371\|ref\|YP_002867283.1\| transcriptional regulator, AraC family [Bacillus anthracis str. A02... gi\|227814143, gi... - gi\|227814143\|ref\|YP_002814152.1\| transcriptional regulator, AraC family [Bacillus anthracis str. CDC... gi\|254760897 - gi\|254760897\|ref\|ZP_05212921.1\| transcriptional regulator, AraC family protein [Bacillus anthracis s... gi\|254752381 - gi\|254752381\|ref\|ZP_05204417.1\| transcriptional regulator, AraC family protein [Bacillus anthracis s... gi\|49185849, gi\|... - gi\|49185849\|ref\|YP_029101.1\| AraC family transcriptional regulator [Bacillus anthracis str. Sterne],... gi\|190563799, gi... - gi\|190564482\|ref\|ZP_03017403.1\| transcriptional regulator, AraC family [Bacillus anthracis Tsiankovs... gi\|177649890, gi... - gi\|177649890\|ref\|ZP_02932891.1\| transcriptional regulator, AraC family [Bacillus anthracis str. A017... gi\|170705184, gi... - gi\|170705184\|ref\|ZP_02895649.1\| transcriptional regulator, AraC family [Bacillus anthracis str. A038... gi\|167637424, gi... - gi\|167637424\|ref\|ZP_02395704.1\| transcriptional regulator, AraC family [Bacillus anthracis str. A019... gi\|164715232, gi... - gi\|165868506\|ref\|ZP_02213166.1\| transcriptional regulator, AraC family [Bacillus anthracis str. A048... gi\|47528349, gi\|... - gi\|47528349\|ref\|YP_019698.1\| AraC family transcriptional regulator [Bacillus anthracis str. 'Ames An... gi\|30263010, gi\|... - gi\|30263010\|ref\|NP_845387.1\| AraC family transcriptional regulator [Bacillus anthracis str. Ames], g...	1.0E-56	[1..325]	[1..295]
gi\|163940775, gi... - gi\|89207155\|ref\|ZP_01185702.1\| Helix-turn-helix, AraC type:Bacterial transcription activator, effect...	1.0E-56	[1..325]	[1..295]
gi\|42782144, gi\|... - gi\|42782144\|ref\|NP_979391.1\| AraC family transcriptional regulator [Bacillus cereus ATCC 10987], gi\|...	2.0E-56	[1..325]	[1..295]
gi\|25350131 - pir\|\|A83700 hypothetical protein BH0401 [imported] - Bacillus halodurans (strain C-125) gi\|15612964, gi\|... - gi\|15612964\|ref\|NP_241267.1\| hypothetical protein BH0401 [Bacillus halodurans C-125], gi\|10173014\|db...	2.0E-56	[9..325]	[4..298]

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Predicted Domain #1

Region A:
Residues: [1-326]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MRRADTLHRY ESRVNRLIDH IVNNLSGPLT LEEMAAVSSF SPFHLHRIFS TVMGETLAAF  60
   61 IRRVRIERAA VLLLWNPTRS VTDIAFACGF SSSQNLARAF TRHMGMPPGV YRRCRREEGC 120
  121 GLTPAGAGND DNGKNGNAGG MGLWHGGDAA GASGHHLHLA HSLLERSATM DVRIEEMPRF 180
  181 HVAYLRHVGP YTEATIGPVW GRLMEWAGAR GLLRPGVKTL GVSWDDPEVT PPEHCRYDAC 240
  241 IVIAPGVEVD GGCATQEVGG GLYAVYRRPV ACGQFTEAWN ELFGQWLPTS GMQADDRPCF 300
  301 ELYNDVMQAP PEGPWDVSIC MPVRPL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	34.522879
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
binding	1.20079044003198	bayes_pls_golite062009
sequence-specific DNA binding	1.04282979744908	bayes_pls_golite062009
transcription regulator activity	0.993835017049764	bayes_pls_golite062009
nucleic acid binding	0.924960672141413	bayes_pls_golite062009
RNA polymerase II transcription factor activity	0.864966310120816	bayes_pls_golite062009
DNA binding	0.709788767352944	bayes_pls_golite062009
transcription repressor activity	0.605733396003465	bayes_pls_golite062009
protein binding	0.57484570028668	bayes_pls_golite062009
transcription activator activity	0.429438163871377	bayes_pls_golite062009
transcription factor activity	0.114745880439629	bayes_pls_golite062009
transcription factor binding	0.109547968922689	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: