YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|56554227, gi\|...
Organism:	Homo sapiens
Length:	257 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|56554227, gi|....

Description	E-value	Query Range	Subject Range
gi\|68396885 - gi\|68396885\|ref\|XP_683221.1\| PREDICTED: similar to retinoid X receptor-alpha [Danio rerio]	237.0	[0..5]	[255..285]
gi\|114627460 - gi\|114627460\|ref\|XP_520345.2\| PREDICTED: hypothetical protein [Pan troglodytes]	236.0	[0..6]	[255..352]
gi\|94366203 - gi\|94366203\|ref\|XP_995211.1\| PREDICTED: similar to Retinoic acid receptor RXR-alpha (Retinoid X rece...	233.0	[0..6]	[255..220]
gi\|83026436 - gi\|83026436\|gb\|ABB96254.1\| retinoid X receptor, alpha [Homo sapiens]	231.0	[0..6]	[255..203]
gi\|148747360, gi... - gi\|149039209\|gb\|EDL93429.1\| retinoid X receptor alpha, isoform CRA_a [Rattus norvegicus], gi\|1487473...	231.0	[0..6]	[255..218]
gi\|84579197 - gi\|84579197\|dbj\|BAE73032.1\| hypothetical protein [Macaca fascicularis]	231.0	[0..6]	[255..213]

Back

Predicted Domain #1

Region A:
Residues: [1-257]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GSHMSQGSGE GEGVQLTAAQ ELMIQQLVAA QLQCNKRSFS DQPKVTPWPL GADPQSRDAR  60
   61 QQRFAHFTEL AIISVQEIVD FAKQVPGFLQ LGREDQIALL KASTIEIMLL ETARRYNHET 120
  121 ECITFLKDFT YSKDDFHRAG LQVEFINPIF EFSRAMRRLG LDDAEYALLI AINIFSADRP 180
  181 NVQEPGRVEA LQQPYVEALL SYTRIKRPQD QLRFPRMLMK LVSLRTLSSV HSEQVFALRL 240
  241 QDKKLPPLLS EIWDVHE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	58.221849
Match:	1upvA
Description:	Crystal structure of the human Liver X receptor beta ligand binding domain in complex with a synthetic agonist
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
binding	1.15996699473685	bayes_pls_golite062009
transcription regulator activity	0.46162010671465	bayes_pls_golite062009
protein binding	0.33427459029264	bayes_pls_golite062009
nucleic acid binding	0.15459949087509	bayes_pls_golite062009
DNA binding	0.14395376162921	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: