YRC Public Data Repository - Protein Structure Prediction

Protein:	Trf-PA
Organism:	Drosophila melanogaster
Length:	224 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 Trf-PA.

Description	E-value	Query Range	Subject Range
gi\|108871290, gi... - gi\|157167852\|ref\|XP_001662432.1\| tata-box binding protein [Aedes aegypti], gi\|108871290\|gb\|EAT35515....	336.0	[0..12]	[223..112]
gi\|30178356, gi\|... - gi\|31201601\|ref\|XP_309748.1\| ENSANGP00000025077 [Anopheles gambiae str. PEST], gi\|30178356\|gb\|EAA453...	336.0	[0..13]	[223..136]
gi\|125807343, gi... - gi\|54635541\|gb\|EAL24944.1\| GA22088 [Drosophila pseudoobscura pseudoobscura], gi\|125807343\|ref\|XP_001... gi\|125807343\|ref... - GA22088-PA [Drosophila pseudoobscura], GA22088 [Drosophila pseudoobscura pseudoobscura] gi\|195149788, gi... - gi\|195149788\|ref\|XP_002015837.1\| GL11271 [Drosophila persimilis], gi\|194109684\|gb\|EDW31727.1\| GL1127...	334.0	[0..11]	[223..130]
gi\|220942262, gi... - gi\|220952470\|gb\|ACL88778.1\| Tbp-PA [synthetic construct], gi\|220942262\|gb\|ACL83674.1\| Tbp-PA [synthe... Tbp-PA - The gene TATA binding protein is referred to in FlyBase by the symbol Dmel\Tbp (CG9874, FBgn0003687)...	333.0	[0..23]	[223..149]
gi\|37726730, gi\|... - gi\|37726734\|gb\|AAO34519.1\| TATA-binding protein isoform 3 [Branchiostoma floridae], gi\|37726730\|gb\|A...	331.0	[0..28]	[224..133]
TBP_DANRE - TATA-box-binding protein OS=Danio rerio GN=tbp PE=1 SV=1	327.0	[0..12]	[224..84]
gi\|66536790 - gi\|66536790\|ref\|XP_623088.1\| PREDICTED: similar to TATA-box-binding protein (TATA-box factor) (TATA-...	326.0	[0..21]	[223..112]
ENSPTRT00000066622 - null gi\|80474966 - gi\|80474966\|gb\|AAI09055.1\| TBP protein [Homo sapiens] gi\|190691993, gi... - gi\|254071353\|gb\|ACT64436.1\| TATA box binding protein protein [synthetic construct], gi\|190691993\|gb\|...	325.0	[0..28]	[224..89]

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Predicted Domain #1

Region A:
Residues: [1-224]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MQFHFKVADA ERDRDNVAAT SNAAANPHAA LQPQQPVALV EPKDAQHEIR LQNIVATFSV  60
   61 NCELDLKAIN SRTRNSEYSP KRFRGVIMRM HSPRCTALIF RTGKVICTGA RNEIEADIGS 120
  121 RKFARILQKL GFPVKFMEYK LQNIVATVDL RFPIRLENLN HVHGQFSSYE PEMFPGLIYR 180
  181 MVKPRIVLLI FVNGKVVFTG AKSRKDIMDC LEAISPILLS FRKT

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	82.69897
Match:	1rm1A
Description:	Structure of a Yeast TFIIA/TBP/TATA-box DNA Complex
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
general RNA polymerase II transcription factor activity	10.1927670598446	bayes_pls_golite062009
RNA polymerase III transcription factor activity	8.4318102330583	bayes_pls_golite062009
transcription regulator activity	4.66773099672992	bayes_pls_golite062009
RNA polymerase II transcription factor activity	3.97397050058114	bayes_pls_golite062009
DNA binding	3.93251147843671	bayes_pls_golite062009
nucleic acid binding	3.82919607287537	bayes_pls_golite062009
binding	2.72886792846471	bayes_pls_golite062009
transcription factor activity	2.38288562794802	bayes_pls_golite062009
protein binding	1.96605926404517	bayes_pls_golite062009
transcription factor binding	1.86204668268867	bayes_pls_golite062009
specific RNA polymerase II transcription factor activity	1.59579825271822	bayes_pls_golite062009
transcription activator activity	1.5285505684695	bayes_pls_golite062009
sequence-specific DNA binding	1.16858275919592	bayes_pls_golite062009
transcription coactivator activity	0.312991469396539	bayes_pls_golite062009
RNA polymerase I transcription factor activity	0.230395922046101	bayes_pls_golite062009
chromatin binding	0.107733889697044	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: