YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|39996621, gi\|...
Organism:	Geobacter sulfurreducens PCA
Length:	91 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|39996621, gi|....

Description	E-value	Query Range	Subject Range
gi\|113724087, gi... - gi\|113875483\|ref\|ZP_01415608.1\| nucleoid DNA-binding protein-like [Sinorhizobium medicae WSM419], gi...	129.0	[0..1]	[90..101]
gi\|31789462 - gi\|31789462\|gb\|AAP58576.1\| putative DNA-binding protein [uncultured Acidobacteria bacterium]	127.0	[0..1]	[90..1]
DBH1_BACHD - DNA-binding protein HU-1 OS=Bacillus halodurans (strain ATCC BAA-125 / DSM 18197 / FERM 7344 / JCM 9... DBH1_BACHD - DNA-binding protein HU-1 OS=Bacillus halodurans GN=hup1 PE=3 SV=1	125.0	[0..1]	[90..1]
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...	125.0	[0..1]	[90..25]
gi\|228957885, gi... - gi\|228957885\|ref\|ZP_04119625.1\| DNA-binding protein HU [Bacillus thuringiensis serovar pakistani str... gi\|228951986, gi... - gi\|228951986\|ref\|ZP_04114083.1\| DNA-binding protein HU [Bacillus thuringiensis serovar kurstaki str.... gi\|228775082, gi... - gi\|228984688\|ref\|ZP_04144861.1\| DNA-binding protein HU [Bacillus thuringiensis serovar tochigiensis ... gi\|228781230, gi... - gi\|228978213\|ref\|ZP_04138590.1\| DNA-binding protein HU [Bacillus thuringiensis Bt407], gi\|228781230\|... gi\|229078792, gi... - gi\|229078792\|ref\|ZP_04211345.1\| DNA-binding protein HU [Bacillus cereus Rock4-2], gi\|228704474\|gb\|EE... gi\|229043354, gi... - gi\|229043354\|ref\|ZP_04191072.1\| DNA-binding protein HU [Bacillus cereus AH676], gi\|228726002\|gb\|EEL7... gi\|228681114, gi... - gi\|229102213\|ref\|ZP_04232922.1\| DNA-binding protein HU [Bacillus cereus Rock3-28], gi\|228681114\|gb\|E... gi\|228687061, gi... - gi\|229096101\|ref\|ZP_04227074.1\| DNA-binding protein HU [Bacillus cereus Rock3-29], gi\|228687061\|gb\|E... gi\|229115057, gi... - gi\|229115057\|ref\|ZP_04244467.1\| DNA-binding protein HU [Bacillus cereus Rock1-3], gi\|228668197\|gb\|EE... gi\|229109065, gi... - gi\|229109065\|ref\|ZP_04238665.1\| DNA-binding protein HU [Bacillus cereus Rock1-15], gi\|228674343\|gb\|E... gi\|229149807, gi... - gi\|229149807\|ref\|ZP_04278036.1\| DNA-binding protein HU [Bacillus cereus m1550], gi\|228633671\|gb\|EEK9... gi\|228639216, gi... - gi\|229144208\|ref\|ZP_04272622.1\| DNA-binding protein HU [Bacillus cereus BDRD-ST24], gi\|228639216\|gb\|... gi\|229183804, gi... - gi\|229183804\|ref\|ZP_04311021.1\| DNA-binding protein HU [Bacillus cereus BGSC 6E1], gi\|228599653\|gb\|E... gi\|229178017, gi... - gi\|229178017\|ref\|ZP_04305389.1\| DNA-binding protein HU [Bacillus cereus 172560W], gi\|228605505\|gb\|EE... gi\|65318875 - gi\|65318875\|ref\|ZP_00391834.1\| COG0776: Bacterial nucleoid DNA-binding protein [Bacillus anthracis s... gi\|228820962, gi... - gi\|228938721\|ref\|ZP_04101325.1\| DNA-binding protein HU [Bacillus thuringiensis serovar berliner ATCC...	124.0	[0..1]	[90..15]
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	122.0	[0..1]	[91..1]
gi\|88703270, gi\|... - gi\|88703270\|ref\|ZP_01100986.1\| Histone-like bacterial DNA-binding protein [gamma proteobacterium KT ...	122.0	[0..1]	[91..25]
gi\|207999 - gi\|207999\|gb\|AAA72912.1\| HBsu protein	122.0	[0..1]	[89..7]
gi\|90328416, gi\|... - gi\|90410785\|ref\|ZP_01218800.1\| putative bacterial nucleoid DNA-binding protein [Photobacterium profu...	121.0	[0..1]	[90..1]
gi\|54309795, gi\|... - gi\|54309795\|ref\|YP_130815.1\| putative nucleoid DNA-binding protein [Photobacterium profundum SS9], g...	121.0	[0..1]	[90..13]

Back

Predicted Domain #1

Region A:
Residues: [1-91]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTKADIVEQI YEKIGFSKKE SAELVERVFG LIKETLERGE KIKIAGFGNF VVKDKADRRG  60
   61 RNPQTGDEII ISARKILTFK PSQVLKSSIN T

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	28.30103
Match:	1hueA
Description:	HU protein
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: