YRC Public Data Repository - Protein Structure Prediction

Protein:	NHP6A
Organism:	Saccharomyces cerevisiae
Length:	93 amino acids
Reference:	Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076

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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 NHP6A.

Description	E-value	Query Range	Subject Range
gi\|148699130, gi... - gi\|29290594\|emb\|CAD83017.1\| bM168F16.1 (novel protein similar to high-mobility group box 1 (Hmgb1)) ...	4.0E-32	[1..91]	[75..165]
gi\|32450384, gi\|... - gi\|32450384\|gb\|AAH54148.1\| Hmgb1-prov protein [Xenopus laevis], gi\|148234528\|ref\|NP_001080836.1\| hig...	7.0E-32	[1..91]	[75..165]
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	7.0E-32	[1..91]	[74..164]
gi\|3342573 - gi\|3342573\|gb\|AAC27651.1\| high mobility group protein [Spalax ehrenbergi]	8.0E-32	[1..91]	[75..165]
gi\|61367275, gi\|... - gi\|61371572\|gb\|AAX43692.1\| high-mobility group box 1 [synthetic construct], gi\|61367275\|gb\|AAX42975....	7.0E-31	[1..91]	[75..165]
HMGB1_CRIGR - High mobility group protein B1 (Fragment) OS=Cricetulus griseus GN=HMGB1 PE=1 SV=1	9.0E-31	[1..91]	[40..130]

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Predicted Domain #1

Region A:
Residues: [1-93]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MVTPREPKKR TTRKKKDPNA PKRALSAYMF FANENRDIVR SENPDITFGQ VGKKLGEKWK  60
   61 ALTPEEKQPY EAKAQADKKR YESEKELYNA TLA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	337.751666
Match:	1cg7A_
Description:	NHP6a
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
binding	0.927928103499335	bayes_pls_golite062009
nucleic acid binding	0.38664561645052	bayes_pls_golite062009
DNA binding	0.37554038880732	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: