YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|36950991, gi\|...
Organism:	Homo sapiens
Length:	615 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|36950991, gi|....

Description	E-value	Query Range	Subject Range
gi\|114585545, gi... - gi\|114585547\|ref\|XP_001158643.1\| PREDICTED: nuclear receptor subfamily 2, group C, member 2 isoform ...	5.0E-96	[1..615]	[1..615]
gi\|2136283, gi\|5... - gi\|538261\|gb\|AAA21474.1\| TR4 orphan receptor, pir\|\|I59309 TR4 orphan receptor - human	4.0E-94	[1..615]	[1..615]
gi\|73984965 - gi\|73984965\|ref\|XP_541755.2\| PREDICTED: similar to nuclear receptor subfamily 2, group C, member 2 [...	9.0E-93	[1..615]	[23..633]
NR2C2_MOUSE - Nuclear receptor subfamily 2 group C member 2 OS=Mus musculus GN=Nr2c2 PE=1 SV=1	3.0E-89	[1..615]	[1..596]
gi\|2143463, gi\|9... - gi\|912822\|gb\|AAB33314.1\| type II zinc finger DNA binding transcription factor [Mus sp.], gi\|2143463\|... gi\|148666900 - gi\|148666900\|gb\|EDK99316.1\| nuclear receptor subfamily 2, group C, member 2, isoform CRA_a [Mus musc...	1.0E-88	[1..615]	[34..629]
NR2C2_RAT - Nuclear receptor subfamily 2 group C member 2 OS=Rattus norvegicus GN=Nr2c2 PE=1 SV=1	6.0E-88	[1..615]	[1..596]
gi\|50754654 - gi\|50754654\|ref\|XP_414462.1\| PREDICTED: similar to type II zinc finger DNA binding transcription fac...	1.0E-84	[40..614]	[27..601]

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Predicted Domain #1

Region A:
Residues: [1-125]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTSPSPRIQI ISTDSAVASP QRIQGSEPAS GPLSVFTSLN KEKIVTDQQT GQKIQIVTAV  60
   61 DASGSPKQQF ILTSPDGAGT GKVILASPET SSAKQLIFTT SDNLVPGRIQ IVTDSASVER 120
  121 LLGKT

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #2

Region A:
Residues: [126-217]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DVQRPQVVEY CVVCGDKASG RHYGAVSCEG CKGFFKRSVR KNLTYSCRSN QDCIINKHHR  60
   61 NRCQFCRLKK CLEMGMKMES VQSERKPFDV QR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	24.69897
Match:	2a66A
Description:	Human Liver Receptor Homologue DNA-Binding Domain (hLRH-1 DBD) in Complex with dsDNA from the hCYP7A1 Promoter
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [218-318]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 EKPSNCAAST EKIYIRKDLR SPLIATPTFV ADKDGARQTG LLDPGMLVNI QQPLIREDGT  60
   61 VLLATDSKAE TSQGALGTLA NVVTSLANLS ESLNNGDTSE I

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #4

Region A:
Residues: [319-615]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 QPEDQSASEI TRAFDTLAKA LNTTDSSSSP SLADGIDTSG GGSIHVISRD QSTPIIEVEG  60
   61 PLLSDTHVTF KLTMPSPMPE YLNVHYICES ASRLLFLSMH WARSIPAFQA LGQDCNTSLV 120
  121 RACWNELFTL GLAQCAQVMS LSTILAAIVN HLQNSIQEDK LSGDRIKQVM EHIWKLQEFC 180
  181 NSMAKLDIDG YEYAYLKAIV LFSPDHPGLT STSQIEKFQE KAQMELQDYV QKTYSEDTYR 240
  241 LARILVRLPA LRLMSSNITE ELFFTGLIGN VSIDSIIPYI LKMETAEYNG QITGASL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	51.69897
Match:	1lbdA
Description:	LIGAND-BINDING DOMAIN OF THE HUMAN NUCLEAR RECEPTOR RXR-ALPHA
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
transcription regulator activity	5.53061626347066	bayes_pls_golite062009
DNA binding	4.92165988569962	bayes_pls_golite062009
nucleic acid binding	4.78024150262074	bayes_pls_golite062009
transcription activator activity	4.53302455129434	bayes_pls_golite062009
sequence-specific DNA binding	4.11614358606713	bayes_pls_golite062009
transcription factor activity	4.0914094580319	bayes_pls_golite062009
ligand-dependent nuclear receptor activity	3.89763470197726	bayes_pls_golite062009
binding	3.85318710398432	bayes_pls_golite062009
transcription repressor activity	3.83878598697109	bayes_pls_golite062009
receptor activity	3.25980607692886	bayes_pls_golite062009
protein binding	3.21524787168952	bayes_pls_golite062009
molecular transducer activity	2.88642387634609	bayes_pls_golite062009
signal transducer activity	2.88642387634609	bayes_pls_golite062009
transcription factor binding	2.68044489404568	bayes_pls_golite062009
RNA polymerase II transcription factor activity	2.38308182853979	bayes_pls_golite062009
retinoic acid receptor activity	2.35111225472682	bayes_pls_golite062009
steroid hormone receptor activity	2.30195937604451	bayes_pls_golite062009
transcription cofactor activity	1.73827483890179	bayes_pls_golite062009
nuclear hormone receptor binding	1.60419100774741	bayes_pls_golite062009
retinoic acid receptor binding	1.59968001933699	bayes_pls_golite062009
retinoid X receptor binding	1.45560845709347	bayes_pls_golite062009
specific RNA polymerase II transcription factor activity	1.34794228300778	bayes_pls_golite062009
promoter binding	1.28787959668198	bayes_pls_golite062009
transcription coactivator activity	1.23834725221597	bayes_pls_golite062009
receptor binding	1.04943671621651	bayes_pls_golite062009
transcription corepressor activity	0.995333369475571	bayes_pls_golite062009
protein dimerization activity	0.797229273848179	bayes_pls_golite062009
hormone receptor binding	0.74373733735458	bayes_pls_golite062009
protein N-terminus binding	0.57701453824007	bayes_pls_golite062009
thyroid hormone receptor activity	0.49784404390361	bayes_pls_golite062009
structure-specific DNA binding	0.47826452126899	bayes_pls_golite062009
lipid binding	0.475303782949439	bayes_pls_golite062009
protein heterodimerization activity	0.45265806678057	bayes_pls_golite062009
double-stranded DNA binding	0.42652610679613	bayes_pls_golite062009
transcription activator binding	0.2735140201748	bayes_pls_golite062009
ligand-regulated transcription factor activity	0.202197503742221	bayes_pls_golite062009
ecdysteroid hormone receptor activity	0.189811178379669	bayes_pls_golite062009
RNA polymerase II transcription factor activity, enhancer binding	0.15737167800277	bayes_pls_golite062009
catalytic activity	0.106902059021677	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: