YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|15887595, gi\|...
Organism:	Agrobacterium tumefaciens str. C58
Length:	204 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

[What does the above image mean?]

[Show Ginzu Version Information]

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|15887595, gi|....

Description	E-value	Query Range	Subject Range
gi\|26989587, gi\|... - gi\|26989587\|ref\|NP_745012.1\| Cro/CI family transcriptional regulator [Pseudomonas putida KT2440], gi...	116.0	[0..5]	[203..1]
gi\|34762120, gi\|... - gi\|34762120\|ref\|ZP_00143128.1\| Transcriptional regulator, MerR family [Fusobacterium nucleatum subsp... gi\|237741413, gi... - gi\|237741413\|ref\|ZP_04571894.1\| transcriptional regulator [Fusobacterium sp. 4_1_13], gi\|229430945\|g...	116.0	[0..22]	[203..1]
gi\|78365654, gi\|... - gi\|78365654\|ref\|ZP_00835939.1\| Helix-turn-helix motif:Cupin region [Shewanella sp. PV-4], gi\|7836219...	116.0	[0..22]	[201..1]
gi\|70730070, gi\|... - gi\|70730070\|ref\|YP_259809.1\| DNA-binding protein [Pseudomonas fluorescens Pf-5], gi\|68344369\|gb\|AAY9...	116.0	[0..2]	[203..7]
gi\|78043349, gi\|... - gi\|78043349\|ref\|YP_359532.1\| MerR family transcriptional regulator [Carboxydothermus hydrogenoforman...	115.0	[0..6]	[203..79]
gi\|19713186, gi\|... - gi\|19713186\|gb\|AAL94027.1\| Transcriptional regulator, MerR family [Fusobacterium nucleatum subsp. nu...	115.0	[0..22]	[203..1]
gi\|95113300, gi\|... - gi\|95113300\|emb\|CAK18028.1\| putative transcriptional regulator [Pseudomonas entomophila L48], gi\|104... gi\|95113300 - gi\|95113300\|emb\|CAK18028.1\| putative transcriptional regulator [Pseudomonas entomophila L48]	115.0	[0..22]	[201..1]
gi\|148548035, gi... - gi\|82737233\|ref\|ZP_00900084.1\| Helix-turn-helix motif [Pseudomonas putida F1], gi\|82715605\|gb\|EAP506...	114.0	[0..5]	[203..1]
gi\|49081740 - gi\|49081740\|gb\|AAT50270.1\| PA5301 [synthetic construct]	113.0	[0..22]	[201..1]

Back

Predicted Domain #1

Region A:
Residues: [1-204]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTPSYENNNH HMMETEDRIL ERSIGERIKV LRAESGLTLE RLASESGVSR AMISRIERGE  60
   61 ASPTASLLAR ICAALGLSLS GFFAENEEAV SPLVKKRDQQ LWKDPETGYV RRAISPPRVG 120
  121 SDVDIVEVEF PAGARVGFPP HAASRGMTQY VWLFEGVLEM TSGGVVHLMD PGDCLFMPVG 180
  181 EGHVFHNPSQ KPARYAVVLD QRQR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	18.0
Match:	1y9qA
Description:	Crystal Structure of HTH_3 family Transcriptional Regulator from Vibrio cholerae
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
catalytic activity	0.77242843392921	bayes_pls_golite062009
transcription regulator activity	0.707930119310256	bayes_pls_golite062009
nucleic acid binding	0.437474993266492	bayes_pls_golite062009
RNA polymerase II transcription factor activity	0.29966985317584	bayes_pls_golite062009
DNA binding	0.241621391797808	bayes_pls_golite062009
binding	0.206341280654185	bayes_pls_golite062009
sequence-specific DNA binding	0.20324889750334	bayes_pls_golite062009
transcription repressor activity	0.0485771867742395	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: