YRC Public Data Repository - Protein Structure Prediction

Protein:	HXD3_RAT
Organism:	Rattus norvegicus
Length:	114 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 HXD3_RAT.

Description	E-value	Query Range	Subject Range
gi\|9621907 - gi\|9621907\|gb\|AAF89581.1\|AF165886_1 paired-box transcription factor [Branchiostoma floridae]	120.0	[0..1]	[114..179]
gi\|91087879 - gi\|91087879\|ref\|XP_969925.1\| PREDICTED: similar to transcription factor protein [Tribolium castaneum...	120.0	[0..2]	[104..37]
RX1_DANRE - Retinal homeobox protein Rx1 OS=Danio rerio GN=rx1 PE=2 SV=2	118.0	[0..1]	[114..127]
gi\|74004890 - gi\|74004890\|ref\|XP_852451.1\| PREDICTED: similar to Homeobox protein Hox-D4 (Hox-4.2) (Hox-5.1) [Cani...	118.0	[0..3]	[104..132]
gi\|21389045 - gi\|21389045\|gb\|AAM50457.1\|AF393441_1 sex comb reduced [Sacculina carcini]	117.0	[0..7]	[109..4]
HXD3A_TAKRU - Homeobox protein Hox-D3a OS=Takifugu rubripes GN=hoxd3a PE=3 SV=1	116.0	[0..1]	[114..165]
gi\|108873902, gi... - gi\|157124733\|ref\|XP_001660498.1\| homeotic deformed protein, putative [Aedes aegypti], gi\|108873902\|g...	116.0	[0..6]	[99..172]
HXA7_MOUSE - Homeobox protein Hox-A7 OS=Mus musculus GN=Hoxa7 PE=2 SV=2	116.0	[0..3]	[93..121]

Back

Predicted Domain #1

Region A:
Residues: [1-114]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TGRTRAHRAR HPRGCTAYTS AQLVELEKEF HFNRYLCRRR RVEMANLLNL TERQIKIWFQ  60
   61 NRRMKYKKDQ KAKGILHSPA GQSPERTPPL GGAAATCLLR PAAAVPAWPT THPS

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	22.221849
Match:	1homA
Description:	DETERMINATION OF THE THREE-DIMENSIONAL STRUCTURE OF THE ANTENNAPEDIA HOMEODOMAIN FROM DROSOPHILA IN SOLUTION BY 1H NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
transcription regulator activity	2.6809639302471	bayes_pls_golite062009
DNA binding	2.45264254102339	bayes_pls_golite062009
nucleic acid binding	2.32767577674158	bayes_pls_golite062009
binding	2.12643314274039	bayes_pls_golite062009
transcription factor activity	1.9610710007594	bayes_pls_golite062009
protein binding	1.62529996900514	bayes_pls_golite062009
sequence-specific DNA binding	0.71974400731667	bayes_pls_golite062009
RNA polymerase II transcription factor activity	0.328460252819506	bayes_pls_golite062009
transcription repressor activity	0.245215140763955	bayes_pls_golite062009
transcription activator activity	0.0177888191364471	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: