YRC Public Data Repository - Protein Structure Prediction

Protein:	IHFB_SHEON
Organism:	Shewanella oneidensis MR-1
Length:	95 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 IHFB_SHEON.

Description	E-value	Query Range	Subject Range
IHFB_RHORT - Integration host factor subunit beta OS=Rhodospirillum rubrum (strain ATCC 11170 / ATH 1.1.1 / DSM 4...	128.0	[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	126.0	[0..1]	[94..1]
gi\|111279809, gi... - gi\|111619683\|ref\|ZP_01406689.1\| Histone-like bacterial DNA-binding protein [Acidovorax avenae subsp....	123.0	[0..1]	[92..7]
gi\|113724087, gi... - gi\|113875483\|ref\|ZP_01415608.1\| nucleoid DNA-binding protein-like [Sinorhizobium medicae WSM419], gi...	123.0	[0..1]	[91..101]
IHFB_HAHCH - Integration host factor subunit beta OS=Hahella chejuensis (strain KCTC 2396) GN=ihfB PE=3 SV=1	122.0	[0..1]	[92..1]
IHFB_SACD2 - Integration host factor subunit beta OS=Saccharophagus degradans (strain 2-40 / ATCC 43961 / DSM 170...	122.0	[0..1]	[91..1]
IHFB_HALHL - Integration host factor subunit beta OS=Halorhodospira halophila (strain DSM 244 / SL1) GN=ihfB PE=3...	122.0	[0..1]	[92..1]
IHFB_ALKEH - Integration host factor subunit beta OS=Alkalilimnicola ehrlichii (strain ATCC BAA-1101 / DSM 17681 ...	122.0	[0..1]	[92..1]
gi\|76882033, gi\|... - gi\|77163719\|ref\|YP_342244.1\| integration host factor, beta subunit [Nitrosococcus oceani ATCC 19707]...	122.0	[0..1]	[92..18]
IHFB_BORPA - Integration host factor subunit beta OS=Bordetella parapertussis GN=ihfB PE=3 SV=1 IHFB_BORPA - Integration host factor subunit beta OS=Bordetella parapertussis (strain 12822 / ATCC BAA-587 / NCTC...	121.0	[0..1]	[91..1]

Back

Predicted Domain #1

Region A:
Residues: [1-95]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTKSELIEKL ATRQSQLSAK EVEGAIKEML EQMATTLESG DRIEIRGFGS FSLHYRAPRT  60
   61 GRNPKTGSSV ELEGKYVPHF KPGKELRERV DAVNV

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	27.0
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: