YRC Public Data Repository - Protein Structure Prediction

Protein:	RL35A_RAT
Organism:	Rattus norvegicus
Length:	110 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 RL35A_RAT.

Description	E-value	Query Range	Subject Range
gi\|60831600 - gi\|60831600\|gb\|AAX36977.1\| ribosomal protein L35a [synthetic construct]	195.0	[0..1]	[110..1]
gi\|12833486 - gi\|12833486\|dbj\|BAB22541.1\| unnamed protein product [Mus musculus]	194.0	[0..1]	[110..1]
gi\|114591394 - gi\|114591394\|ref\|XP_001167427.1\| PREDICTED: similar to Ribosomal protein L35a isoform 4 [Pan troglod...	193.0	[0..1]	[110..38]
RL35A_BOVIN - 60S ribosomal protein L35a OS=Bos taurus GN=RPL35A PE=3 SV=1	193.0	[0..1]	[110..1]
gi\|255522897, gi... - gi\|255522897\|ref\|NP_001157352.1\| ribosomal protein L35a [Equus caballus], gi\|149731533\|ref\|XP_001501... RPL35A - ribosomal protein L35a gi\|109064986, gi... - gi\|109113810\|ref\|XP_001110581.1\| PREDICTED: similar to ribosomal protein L35a isoform 2 [Macaca mula... ENSCJAT00000001414 - null tr\|M3X8D8\|M3X8D8... - Uncharacterized protein OS=Felis catus GN=LOC105260418 PE=4 SV=1 CCDS33930.1_1 - null RL35A_PONPY - 60S ribosomal protein L35a - Pongo pygmaeus (Orangutan) RL35A_PONAB - 60S ribosomal protein L35a OS=Pongo abelii GN=RPL35A PE=3 SV=1 gi\|114591398, gi... - gi\|114591398\|ref\|XP_001167396.1\| PREDICTED: similar to Ribosomal protein L35a isoform 3 [Pan troglod... RL35A_MACFA - 60S ribosomal protein L35a OS=Macaca fascicularis GN=RPL35A PE=3 SV=1 gi\|74002782, gi\|... - gi\|74002782\|ref\|XP_858367.1\| PREDICTED: similar to ribosomal protein L35a isoform 4 [Canis familiari...	193.0	[0..1]	[110..1]
RL35A_XENLA - 60S ribosomal protein L35a OS=Xenopus laevis GN=rpl35a PE=3 SV=2	192.0	[0..1]	[110..1]
gi\|118095160, gi... - gi\|50752315\|ref\|XP_422734.1\| PREDICTED: similar to ribosomal protein L32 isoform 2 [Gallus gallus], ...	192.0	[0..1]	[110..1]

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Predicted Domain #1

Region A:
Residues: [1-110]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSGRLWCKAI FAGYKRGLRN QREHTALLKI EGVYARDETE FYLGKRCAYV YKAKNNTVTP  60
   61 GGKPNKTRVI WGKVTRAHGN SGMVRAKFRS NLPAKAIGHR IRVMLYPSRI

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	23.09691
Match:	1sqrA
Description:	Solution Structure of the 50S Ribosomal Protein L35AE from Pyrococcus furiosus. Northeast Structural Genomics Consortium Target PfR48.
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
structural constituent of ribosome	8.74976995123472	bayes_pls_golite062009
structural molecule activity	8.17182185344538	bayes_pls_golite062009
translation initiation factor activity	2.68619850021832	bayes_pls_golite062009
nucleic acid binding	2.39500449599674	bayes_pls_golite062009
RNA binding	2.33551163092904	bayes_pls_golite062009
translation regulator activity	2.20347076721097	bayes_pls_golite062009
translation factor activity, nucleic acid binding	2.18748808024313	bayes_pls_golite062009
binding	1.82018436093208	bayes_pls_golite062009
peptidyltransferase activity	1.25473146071242	bayes_pls_golite062009
ligase activity, forming carbon-oxygen bonds	0.588710983191844	bayes_pls_golite062009
ligase activity, forming aminoacyl-tRNA and related compounds	0.588710983191844	bayes_pls_golite062009
aminoacyl-tRNA ligase activity	0.587833689405549	bayes_pls_golite062009
ligase activity	0.179232439709325	bayes_pls_golite062009
protein binding	0.142220848362339	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: