YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|30749557, gi\|...
Organism:	Homo sapiens
Length:	258 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|30749557, 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]	241.0	[0..2]	[257..266]
gi\|114627460 - gi\|114627460\|ref\|XP_520345.2\| PREDICTED: hypothetical protein [Pan troglodytes]	240.0	[0..2]	[257..332]
gi\|109019327, gi... - gi\|109019327\|ref\|XP_001085313.1\| PREDICTED: retinoid X receptor, gamma isoform 3 [Macaca mulatta], g...	239.0	[0..2]	[257..197]
gi\|386367 - gi\|386367\|gb\|AAB27244.1\| retinoid-X receptor-gamma isoform 1; mRXR gamma 1 [Mus sp.] RXRG_MOUSE - Retinoic acid receptor RXR-gamma OS=Mus musculus GN=Rxrg PE=2 SV=2	239.0	[0..2]	[257..197]
RXRG_BOVIN - Retinoic acid receptor RXR-gamma OS=Bos taurus GN=RXRG PE=2 SV=1	239.0	[0..2]	[257..197]
gi\|55726030 - gi\|55726030\|emb\|CAH89791.1\| hypothetical protein [Pongo abelii] RXRG_PONAB - Retinoic acid receptor RXR-gamma OS=Pongo abelii GN=RXRG PE=2 SV=1	238.0	[0..2]	[257..197]
RXRG - retinoid X receptor, gamma HGNC:10479\|MIM:1... - X receptor, gamma gi\|190689913, gi... - gi\|190691285\|gb\|ACE87417.1\| retinoid X receptor, gamma protein [synthetic construct], gi\|190689913\|g... gi\|114561087 - gi\|114561087\|ref\|XP_513962.2\| PREDICTED: retinoid X receptor, gamma isoform 2 [Pan troglodytes]	238.0	[0..2]	[257..197]

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Predicted Domain #1

Region A:
Residues: [1-258]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LQKSIGHKPE PTDEEWELIK TVTEAHVATN AQGSHWKQKR KFLPEDIGQA PIVNAPEGGK  60
   61 VDLEAFSHFT KIITPAITRV VDFAKKLPMF CELPCEDQII LLKGCCMEIM SLRAAVRYDP 120
  121 ESETLTLNGE MAVTRGQLKN GGLGVVSDAI FDLGMSLSSF NLDDTEVALL QAVLLMSSDR 180
  181 PGLACVERIE KYQDSFLLAF EHYINYRKHH VTHFWPKLLM KVTDLRMIGA CHASRFLHMK 240
  241 VECPTELFPP LFLEVFED

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	53.69897
Match:	1n46A
Description:	Thyroid hormone receptor beta (TR-beta)
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: