YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|34811460, gi\|...
Organism:	Escherichia coli
Length:	94 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|34811460, gi|....

Description	E-value	Query Range	Subject Range
IHFB_ALKEH - Integration host factor subunit beta OS=Alkalilimnicola ehrlichii (strain ATCC BAA-1101 / DSM 17681 ...	132.0	[0..1]	[93..1]
IHFB_HALHL - Integration host factor subunit beta OS=Halorhodospira halophila (strain DSM 244 / SL1) GN=ihfB PE=3...	131.0	[0..1]	[92..1]
IHFB_METCA - Integration host factor subunit beta OS=Methylococcus capsulatus (strain ATCC 33009 / NCIMB 11132 / ... IHFB_METCA - Integration host factor subunit beta OS=Methylococcus capsulatus GN=ihfB PE=3 SV=1	130.0	[0..1]	[92..1]
IHFB_RHORT - Integration host factor subunit beta OS=Rhodospirillum rubrum (strain ATCC 11170 / ATH 1.1.1 / DSM 4...	129.0	[0..1]	[93..1]
IHFB_HAHCH - Integration host factor subunit beta OS=Hahella chejuensis (strain KCTC 2396) GN=ihfB PE=3 SV=1	129.0	[0..1]	[92..1]
IHFB_SACD2 - Integration host factor subunit beta OS=Saccharophagus degradans (strain 2-40 / ATCC 43961 / DSM 170...	128.0	[0..1]	[91..1]
gi\|114538317, gi... - gi\|114706456\|ref\|ZP_01439358.1\| integration host factor beta subunit [Fulvimarina pelagi HTCC2506], ...	128.0	[0..1]	[93..1]
gi\|83945692, gi\|... - gi\|83945692\|ref\|ZP_00958037.1\| integration host factor beta subunit [Oceanicaulis alexandrii HTCC263...	128.0	[0..1]	[94..1]
gi\|76882033, gi\|... - gi\|77163719\|ref\|YP_342244.1\| integration host factor, beta subunit [Nitrosococcus oceani ATCC 19707]...	128.0	[0..1]	[93..18]
gi\|29895202, gi\|... - gi\|30019658\|ref\|NP_831289.1\| DNA-binding protein HU [Bacillus cereus ATCC 14579], gi\|29895202\|gb\|AAP... gi\|74488445, gi\|... - gi\|75764066\|ref\|ZP_00743668.1\| DNA-binding protein HU [Bacillus thuringiensis serovar israelensis AT...	127.0	[0..1]	[90..25]

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Predicted Domain #1

Region A:
Residues: [1-94]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTKSELIERL ATQQSHIPAK TVEDAVKEML EHMASTLAQG ERIAIRGFGS FSLHYRAPRT  60
   61 GRNPKTGDKV ELEGKYVPHF KPGKELRDRA NIYG

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	28.69897
Match:	1ihfB
Description:	Integration host factor beta subunit (IHFB)
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
DNA binding	5.25387001942839	bayes_pls_golite062009
nucleic acid binding	5.15205953864352	bayes_pls_golite062009
binding	3.99545980559645	bayes_pls_golite062009
transcription regulator activity	1.74311685689448	bayes_pls_golite062009
transcription activator activity	0.38454381783388	bayes_pls_golite062009
protein binding	0.262917207132993	bayes_pls_golite062009
transcription repressor activity	0.176747764275359	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: