YRC Public Data Repository - Protein Structure Prediction

Protein:	HXB8_RAT
Organism:	Rattus norvegicus
Length:	92 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 HXB8_RAT.

Description	E-value	Query Range	Subject Range
ANTP_DROSU - Homeotic protein antennapedia OS=Drosophila subobscura GN=Antp PE=3 SV=1	126.0	[0..3]	[92..305]
gi\|34398398 - gi\|34398398\|gb\|AAQ67266.1\| antennapedia [Drosophila virilis]	126.0	[0..3]	[92..291]
Antp-PL, Antp-PJ... - The gene Antennapedia is referred to in FlyBase by the symbol Dmel\Antp (CG1028, FBgn0260642). It is...	124.0	[0..3]	[92..289]
gi\|83016948, gi\|... - gi\|83016948\|dbj\|BAE53475.1\| hoxB5a [Oryzias latipes], gi\|74267539\|dbj\|BAE44268.1\| hoxB5a [Oryzias la...	122.0	[0..2]	[83..226]
gi\|61826109 - gi\|61826109\|ref\|XP_588947.1\| PREDICTED: similar to HOXD3 [Bos taurus]	121.0	[0..4]	[90..189]
gi\|74004892 - gi\|74004892\|ref\|XP_545539.2\| PREDICTED: similar to homeo box D3 [Canis familiaris]	121.0	[0..4]	[90..186]
gi\|109067071, gi... - gi\|109067075\|ref\|XP_001091984.1\| PREDICTED: similar to homeobox A3 isoform a isoform 3 [Macaca mulat...	120.0	[0..4]	[88..184]
HXA3_MOUSE - Homeobox protein Hox-A3 OS=Mus musculus GN=Hoxa3 PE=1 SV=2	120.0	[0..4]	[88..185]

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Predicted Domain #1

Region A:
Residues: [1-92]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 VLSPIPSSRR TQRGRQTYSR YQTLELEKEF LFNPYLTRKR RIEVSHALGL TERQVKIWFQ  60
   61 NRRMKWKKEN NKDKFPSSKC EQEELEKEKL ER

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	15.69897
Match:	1b8iA
Description:	Ultrabithorax (ubx) homeodomain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
transcription regulator activity	1.26571574724964	bayes_pls_golite062009
binding	1.25140430108186	bayes_pls_golite062009
DNA binding	1.04913281181737	bayes_pls_golite062009
nucleic acid binding	0.787927191745053	bayes_pls_golite062009
transcription factor activity	0.77563923452142	bayes_pls_golite062009
protein binding	0.134872960372588	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: