YRC Public Data Repository - Protein Structure Prediction

Protein:	YDHM_ECOLI
Organism:	Escherichia coli
Length:	199 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 YDHM_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|71838703, gi\|... - gi\|71838703\|ref\|ZP_00678460.1\| regulatory protein, TetR [Pelobacter propionicus DSM 2379], gi\|717407...	150.0	[0..1]	[195..20]
gi\|106881833, gi... - gi\|119946706\|ref\|YP_944386.1\| transcriptional regulator of TetR family protein [Psychromonas ingraha...	145.0	[0..1]	[198..1]
gi\|115585350, gi... - gi\|32042298\|ref\|ZP_00139881.1\| COG1309: Transcriptional regulator [Pseudomonas aeruginosa UCBPP-PA14...	143.0	[0..3]	[195..2]
gi\|78222023, gi\|... - gi\|78222023\|ref\|YP_383770.1\| TetR family transcriptional regulator [Geobacter metallireducens GS-15]...	142.0	[0..4]	[195..1]
gi\|11352079 - pir\|\|A83371 probable transcription regulator PA2196 [imported] - Pseudomonas aeruginosa (strain PAO1... gi\|218891851, gi... - gi\|218891851\|ref\|YP_002440718.1\| putative transcriptional regulator [Pseudomonas aeruginosa LESB58],... gi\|254235223, gi... - gi\|84321076\|ref\|ZP_00969439.1\| COG1309: Transcriptional regulator [Pseudomonas aeruginosa C3719], gi... gi\|126193996, gi... - gi\|84327489\|ref\|ZP_00975508.1\| COG1309: Transcriptional regulator [Pseudomonas aeruginosa 2192], gi\|... gi\|9948218, gi\|1... - gi\|9948218\|gb\|AAG05584.1\|AE004646_5 probable transcriptional regulator [Pseudomonas aeruginosa PAO1]... gi\|107101623 - gi\|107101623\|ref\|ZP_01365541.1\| hypothetical protein PaerPA_01002667 [Pseudomonas aeruginosa PACS2]	141.0	[0..3]	[195..2]
gi\|77953056, gi\|... - gi\|77953056\|ref\|ZP_00817467.1\| similar to Transcriptional regulator [Marinobacter aquaeolei VT8], gi...	140.0	[0..7]	[196..22]
gi\|87287254, gi\|... - gi\|87310008\|ref\|ZP_01092141.1\| transcriptional regulator, TetR family protein [Blastopirellula marin...	139.0	[0..8]	[197..3]
gi\|39982640, gi\|... - gi\|39995876\|ref\|NP_951827.1\| TetR family transcriptional regulator [Geobacter sulfurreducens PCA], g...	139.0	[0..4]	[195..1]
gi\|82703088, gi\|... - gi\|82703088\|ref\|YP_412654.1\| TetR family transcriptional regulator [Nitrosospira multiformis ATCC 25...	139.0	[0..1]	[198..1]
gi\|77970341, gi\|... - gi\|78062456\|ref\|YP_372364.1\| TetR family transcriptional regulator [Burkholderia sp. 383], gi\|779703...	138.0	[0..1]	[199..1]

Back

Predicted Domain #1

Region A:
Residues: [1-199]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNKHTEHDTR EHLLATGEQL CLQRGFTGMG LSELLKTAEV PKGSFYHYFR SKEAFGVAML  60
   61 ERHYAAYHQR LTELLQSGEG NYRDRILAYY QQTLNQFCQH GTISGCLTVK LSAEVCDLSE 120
  121 DMRSAMDKGA RGVIALLSQA LENGRENHCL TFCGEPLQQA QVLYALWLGA NLQAKISRSF 180
  181 EPLENALAHV KNIIATPAV

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	28.154902
Match:	1vi0A
Description:	Crystal structure of a transcriptional regulator
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
transcription regulator activity	4.29755359385997	bayes_pls_golite062009
DNA binding	3.01268207226307	bayes_pls_golite062009
transcription factor activity	3.00408040212712	bayes_pls_golite062009
nucleic acid binding	2.9430921064275	bayes_pls_golite062009
binding	1.69234246404005	bayes_pls_golite062009
sequence-specific DNA binding	0.46503550280898	bayes_pls_golite062009
RNA polymerase II transcription factor activity	0.24108783215685	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: