YRC Public Data Repository - Protein Structure Prediction

Protein:	NHP2
Organism:	Saccharomyces cerevisiae
Length:	173 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 NHP2.

Description	E-value	Query Range	Subject Range
RL7A_CHICK - 60S ribosomal protein L7a OS=Gallus gallus GN=RPL7A PE=2 SV=2	1.0E-47	[26..171]	[84..234]
RL7A_ICTPU - 60S ribosomal protein L7a OS=Ictalurus punctatus GN=rpl7a PE=2 SV=3	1.0E-47	[27..171]	[85..234]
RL7A_TAKRU - 60S ribosomal protein L7a OS=Takifugu rubripes GN=rpl7a PE=3 SV=3	5.0E-47	[27..171]	[85..234]
gi\|123998529, gi... - gi\|60655915\|gb\|AAX32521.1\| ribosomal protein L7a [synthetic construct], gi\|123998529\|gb\|ABM86866.1\| ... gi\|57092007 - gi\|57092007\|ref\|XP_537800.1\| PREDICTED: similar to 60S ribosomal protein L7a [Canis familiaris] RL7A_MACFA - 60S ribosomal protein L7a OS=Macaca fascicularis GN=RPL7A PE=2 SV=1 gi\|221139842, gi... - gi\|221139842\|ref\|NP_001137511.1\| 60S ribosomal protein L7a [Macaca mulatta], gi\|109109907\|ref\|XP_001... gi\|114605477, gi... - gi\|114605477\|ref\|XP_001167921.1\| PREDICTED: similar to L7a protein isoform 3 [Pan troglodytes], gi\|1... RPL7A - ribosomal protein L7a RL7A_RAT - 60S ribosomal protein L7a OS=Rattus norvegicus GN=Rpl7a PE=1 SV=2 gi\|56956 - gi\|56956\|emb\|CAA33117.1\| unnamed protein product [Rattus rattus]	6.0E-47	[27..171]	[85..234]
gi\|187609304 - gi\|187609304\|pdb\|2ZKR\|FF Chain f, Structure Of A Mammalian Ribosomal 60s Subunit Within An 80s Compl... gi\|162287231, gi... - gi\|162287231\|ref\|NP_001104616.1\| hypothetical protein LOC100037086 [Xenopus laevis], gi\|160773913\|gb... RL7A_MOUSE - 60S ribosomal protein L7a OS=Mus musculus GN=Rpl7a PE=1 SV=2	6.0E-47	[27..171]	[85..234]
gi\|220947724 - gi\|220947724\|gb\|ACL86405.1\| RpL7A-PA [synthetic construct] gi\|194203683, gi... - gi\|195565439\|ref\|XP_002106309.1\| GD16190 [Drosophila simulans], gi\|194203683\|gb\|EDX17259.1\| GD16190 ... gi\|195469971, gi... - gi\|38047799\|gb\|AAR09802.1\| similar to Drosophila melanogaster RpL7A [Drosophila yakuba], gi\|19546997... FBpp0309986, FBp... - The gene Ribosomal protein L7A is referred to in FlyBase by the symbol Dmel\RpL7A (CG3314, FBgn00140...	1.0E-38	[26..171]	[89..239]
RL7A_ANOGA - (O76732) 60S ribosomal protein L7a	2.0E-37	[27..171]	[91..240]
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	4.0E-37	[26..171]	[89..241]

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Predicted Domain #1

Region A:
Residues: [1-173]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MVNGSLGSRE TETSAVKMGK DNKEHKESKE SKTVDNYEAR MPAVLPFAKP LASKKLNKKV  60
   61 LKTVKKASKA KNVKRGVKEV VKALRKGEKG LVVIAGDISP ADVISHIPVL CEDHSVPYIF 120
  121 IPSKQDLGAA GATKRPTSVV FIVPGSNKKK DGKNKEEEYK ESFNEVVKEV QAL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	191.9897
Match:	1e7kA_
Description:	Spliceosomal 15.5kd protein
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
snoRNA binding	4.95788328272916	bayes_pls_golite062009
RNA binding	4.7078532107994	bayes_pls_golite062009
structural constituent of ribosome	3.68798692352408	bayes_pls_golite062009
structural molecule activity	3.12718364266877	bayes_pls_golite062009
	2.493460131667	bayes_pls_golite062009
nucleic acid binding	2.39301463005357	bayes_pls_golite062009
binding	1.74903521776827	bayes_pls_golite062009
mRNA binding	1.63088955572344	bayes_pls_golite062009
catalytic activity	0.264002643439785	bayes_pls_golite062009
protein binding	0.131685221037103	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: