YRC Public Data Repository - Protein Structure Prediction

Protein:	H2AZ_RAT
Organism:	Rattus norvegicus
Length:	128 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 H2AZ_RAT.

Description	E-value	Query Range	Subject Range
gi\|68432331 - gi\|68432331\|ref\|XP_690287.1\| PREDICTED: similar to ReO_6 [Danio rerio]	198.0	[0..1]	[126..288]
gi\|114595343 - gi\|114595343\|ref\|XP_517363.2\| PREDICTED: hypothetical protein [Pan troglodytes]	192.0	[0..2]	[128..272]
gi\|109066680 - gi\|109066680\|ref\|XP_001093992.1\| PREDICTED: similar to H2A histone family, member V isoform 1 [Macac...	190.0	[0..1]	[127..187]
gi\|109500010 - gi\|109500010\|ref\|XP_001065720.1\| PREDICTED: similar to H2A histone family, member V isoform 1 [Rattu...	188.0	[0..1]	[127..136]
gi\|47208069 - gi\|47208069\|emb\|CAF90447.1\| unnamed protein product [Tetraodon nigroviridis]	183.0	[0..2]	[128..89]
gi\|74004252 - gi\|74004252\|ref\|XP_545426.2\| PREDICTED: similar to Histone H2A.l (H2A/l) [Canis familiaris]	183.0	[0..1]	[125..50]
gi\|94391335 - gi\|94391335\|ref\|XP_994513.1\| PREDICTED: similar to H2A histone family, member V isoform 1 [Mus muscu...	182.0	[0..1]	[127..76]

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Predicted Domain #1

Region A:
Residues: [1-128]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MAGGKAGKDS GKAKTKAVSR SQRAGLQFPV GRIHRHLKSR TTSHGRVGAT AAVYSAAILE  60
   61 YLTAEVLELA GNASKDLKVK RITPRHLQLA IRGDEELDSL IKATIAGGGV IPHIHKSLIG 120
  121 KKGQQKTV

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	46.045757
Match:	1f66C
Description:	Histone H2A
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
general RNA polymerase II transcription factor activity	4.57339366278729	bayes_pls_golite062009
RNA polymerase II transcription factor activity	3.71983173426562	bayes_pls_golite062009
binding	3.12722734218139	bayes_pls_golite062009
DNA binding	1.81202026929492	bayes_pls_golite062009
nucleic acid binding	1.77431079461635	bayes_pls_golite062009
transcription factor binding	1.49909125565453	bayes_pls_golite062009
transcription cofactor activity	1.37016786211811	bayes_pls_golite062009
protein binding	1.2861218811362	bayes_pls_golite062009
transcription regulator activity	1.07001118921201	bayes_pls_golite062009
centromeric DNA binding	1.03586371237592	bayes_pls_golite062009
transcription initiation factor activity	0.725138319268162	bayes_pls_golite062009
transcription coactivator activity	0.483720456107869	bayes_pls_golite062009
transcription repressor activity	0.38665562690801	bayes_pls_golite062009
histone binding	0.218942897869955	bayes_pls_golite062009
transcription corepressor activity	0.0581806902793005	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: