YRC Public Data Repository - Protein Structure Prediction

Protein:	hmg-5
Organism:	Caenorhabditis elegans
Length:	204 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 hmg-5.

Description	E-value	Query Range	Subject Range
gi\|109511369, gi... - gi\|109514150\|ref\|XP_001067329.1\| PREDICTED: similar to High mobility group protein 4 (HMG-4) (High m...	151.0	[0..30]	[204..375]
gi\|76609479 - gi\|76609479\|ref\|XP_610926.2\| PREDICTED: similar to high-mobility group box 3 [Bos taurus]	137.0	[0..30]	[204..364]
gi\|114596859 - gi\|114596859\|ref\|XP_517538.2\| PREDICTED: similar to HMGB2 protein [Pan troglodytes]	130.0	[0..19]	[204..168]
gi\|91080287 - gi\|91080287\|ref\|XP_973934.1\| PREDICTED: similar to High mobility group protein DSP1 (Dorsal switch p...	128.0	[0..13]	[197..683]
gi\|109076196 - gi\|109076196\|ref\|XP_001085665.1\| PREDICTED: similar to high-mobility group box 2 [Macaca mulatta]	122.0	[0..18]	[204..115]
gi\|94383594 - gi\|94383594\|ref\|XP_001052174.1\| PREDICTED: high mobility group box 2 [Mus musculus]	117.0	[0..19]	[204..78]
SOX3_CHICK - Transcription factor SOX-3 OS=Gallus gallus GN=SOX3 PE=2 SV=1	114.0	[0..20]	[204..40]

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Predicted Domain #1

Region A:
Residues: [1-204]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MLGTISMRFF ATKVVAPRAS VAASTPQVPL GMNINPYAMF IKENFKANTS DMKRTDLMKE  60
   61 LSGKWKALSI SEKDKYTELS KNYNAQKLDD FMKLSTEEQK KLVDSAKEKK AERASRRHAK 120
  121 ERREKRKQSG RPSVPPSAYA LFIKEKLSGA GMESKEKMKE AVAQWKAFTD SQKKKYTDEA 180
  181 KKLKDEYHVV LQKWEAEQKE NADQ

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	23.69897
Match:	2gzkA
Description:	No description for 2gzkA was found.

Predicted functions:

Term	Confidence	Notes
binding	1.58736395586956	bayes_pls_golite062009
DNA binding	0.877657721760876	bayes_pls_golite062009
nucleic acid binding	0.503728830316317	bayes_pls_golite062009
protein binding	0.199364873295567	bayes_pls_golite062009
transcription regulator activity	0.0336277550372389	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: