YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|209730768, gi...
Organism:	Salmo salar
Length:	108 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|209730768, gi....

Description	E-value	Query Range	Subject Range
gi\|74224980 - gi\|74224980\|dbj\|BAE38203.1\| unnamed protein product [Mus musculus]	179.0	[0..1]	[105..1]
gi\|125821526, gi... - gi\|66472540\|ref\|NP_001018441.1\| general transcription factor IIA, 2 [Danio rerio], gi\|63101237\|gb\|AA...	176.0	[0..1]	[108..1]
gi\|49900038, gi\|... - gi\|52346124\|ref\|NP_001005107.1\| MGC89923 protein [Xenopus (Silurana) tropicalis], gi\|49900038\|gb\|AAH... gi\|148226765, gi... - gi\|57033116\|gb\|AAH88977.1\| TFIIAg protein [Xenopus laevis], gi\|49118757\|gb\|AAH72888.1\| TFIIAg protei...	175.0	[0..1]	[108..1]
gi\|57108247 - gi\|57108247\|ref\|XP_535502.1\| PREDICTED: similar to general transcription factor Iia 2 isoform 1 [Can... CCDS10173.1_1 - null tr\|M3WHV3\|M3WHV3... - Transcription initiation factor IIA subunit 2 OS=Felis catus GN=GTF2A2 PE=3 SV=1 T2AG_MOUSE - Transcription initiation factor IIA subunit 2 OS=Mus musculus GN=Gtf2a2 PE=1 SV=2 T2AG_RAT - Transcription initiation factor IIA subunit 2 OS=Rattus norvegicus GN=Gtf2a2 PE=3 SV=1 gi\|109081344, gi... - gi\|109081344\|ref\|XP_001100320.1\| PREDICTED: similar to general transcription factor Iia 2 isoform 3 ... gi\|149691901 - gi\|149691901\|ref\|XP_001500046.1\| PREDICTED: similar to TFIIA small subunit [Equus caballus]	175.0	[0..1]	[105..1]
GTF2A2 - general transcription factor IIA, 2, 12kDa gi\|114657364, gi... - gi\|55642219\|ref\|XP_510452.1\| PREDICTED: general transcription factor IIA, 2, 12kDa isoform 4 [Pan tr... gi\|83035115, gi\|... - gi\|83035115\|ref\|NP_001032708.1\| general transcription factor IIA, 2, 12kDa [Bos taurus], gi\|81674371... gi\|123980684, gi... - gi\|60656075\|gb\|AAX32601.1\| general transcription factor IIA 2 [synthetic construct], gi\|208966358\|db...	175.0	[0..1]	[105..1]
gi\|66504876 - gi\|66504876\|ref\|XP_623063.1\| PREDICTED: similar to Transcription initiation factor IIA gamma chain (...	169.0	[0..1]	[107..1]
gi\|91086493 - gi\|91086493\|ref\|XP_970803.1\| PREDICTED: similar to transcription initiation factor IIA gamma chain [...	168.0	[0..1]	[106..1]
gi\|114052188, gi... - gi\|95102994\|gb\|ABF51438.1\| transcription initiation factor IIA gamma chain [Bombyx mori], gi\|1140521...	168.0	[0..1]	[102..1]
gi\|240106338 - gi\|240106338\|gb\|EER24531.1\| transcription initiation factor IIA gamma chain, putative [Coccidioides ... gi\|90305297, gi\|... - gi\|90305297\|gb\|EAS34928.1\| conserved hypothetical protein [Coccidioides immitis RS], gi\|119191810\|re...	167.0	[0..2]	[106..6]

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Predicted Domain #1

Region A:
Residues: [1-108]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MAYQLYRNTT LGNSLQESLD ELIQTQQITP QLALQVLLQF DKAINTALAN RVRNRVNFKG  60
   61 SLNTYRFCDN VWTFVLNDVE FREVTDLVKV DKVKIVACDG KNTGNAAE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	43.522879
Match:	1nvpD
Description:	HUMAN TFIIA/TBP/DNA COMPLEX
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
general RNA polymerase II transcription factor activity	10.9702263885595	bayes_pls_golite062009
RNA polymerase II transcription factor activity	5.06993130505706	bayes_pls_golite062009
transcription regulator activity	4.7915315980149	bayes_pls_golite062009
transcription activator activity	2.75298328621175	bayes_pls_golite062009
nucleic acid binding	2.26583234267697	bayes_pls_golite062009
DNA binding	2.12151270115091	bayes_pls_golite062009
transcription coactivator activity	2.10703866415858	bayes_pls_golite062009
binding	1.9212205923594	bayes_pls_golite062009
protein binding	1.54756881357956	bayes_pls_golite062009
transcription factor binding	1.31659763916181	bayes_pls_golite062009
transcription cofactor activity	1.15899255380593	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: