YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|109014532, gi...
Organism:	Macaca mulatta
Length:	135 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|109014532, gi....

Description	E-value	Query Range	Subject Range
gi\|157824067, gi... - gi\|27660130\|ref\|XP_227524.1\| PREDICTED: similar to nescient helix loop helix 2 [Rattus norvegicus], ...	7.0E-24	[1..135]	[1..135]
HEN2_MOUSE - Helix-loop-helix protein 2 OS=Mus musculus GN=Nhlh2 PE=2 SV=1 gi\|251798 - gi\|251798\|gb\|AAB22580.1\| basic domain helix-loop-helix gene [Mus sp.]	8.0E-24	[1..135]	[1..135]
gi\|73981146 - gi\|73981146\|ref\|XP_540253.2\| PREDICTED: similar to nescient helix loop helix 2 [Canis familiaris]	2.0E-22	[1..135]	[203..337]
gi\|76612998, gi\|... - gi\|76613000\|ref\|XP_604054.2\| PREDICTED: similar to Helix-loop-helix protein 2 (HEN2) (Nescient helix...	9.0E-22	[1..135]	[1..133]
gi\|542699 - gi\|542699\|pir\|\|S41126 Myf5 protein - chicken	3.0E-19	[9..134]	[17..141]
gi\|294455 - gi\|294455\|gb\|AAA49497.1\| myogenic regulatory protein	4.0E-19	[11..134]	[7..129]

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Predicted Domain #1

Region A:
Residues: [1-135]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MMLSPDQAAD SDHPSSAHSD PESLGGTDTK VLGSVSDLEP VEEAEGDGKG GSRAALYPHP  60
   61 QQLSREEKRR RRRATAKYRS AHATRERIRV EAFNLAFAEL RKLLPTLPPD KKLSKIEILR 120
  121 LAICYISYLN HVLDV

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	9.522879
Match:	1mdyA
Description:	Myod B/HLH domain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
binding	2.48015842216783	bayes_pls_golite062009
DNA binding	1.68227054158471	bayes_pls_golite062009
nucleic acid binding	1.49015904409851	bayes_pls_golite062009
transcription factor activity	1.44849583176285	bayes_pls_golite062009
transcription regulator activity	1.44430913433076	bayes_pls_golite062009
protein binding	1.36665585692075	bayes_pls_golite062009
sequence-specific DNA binding	0.23534942710392	bayes_pls_golite062009
RNA polymerase II transcription factor activity	0.185301839243976	bayes_pls_golite062009
transcription factor binding	0.136765378218539	bayes_pls_golite062009
transcription activator activity	0.104368037377197	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: