YRC Public Data Repository - Protein Structure Prediction

Protein:	RL35A_XENLA
Organism:	Xenopus laevis
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_XENLA.

Description	E-value	Query Range	Subject Range
gi\|60831600 - gi\|60831600\|gb\|AAX36977.1\| ribosomal protein L35a [synthetic construct]	201.0	[0..1]	[110..1]
RL35A_RAT - 60S ribosomal protein L35a OS=Rattus norvegicus GN=Rpl35a PE=3 SV=1 RL35A_MOUSE - 60S ribosomal protein L35a OS=Mus musculus GN=Rpl35a PE=1 SV=2 tr\|G1SF08\|G1SF08... - pep:novel chromosome:oryCun2:14:93169690:93172758:1 gene:ENSOCUG00000001232 transcript:ENSOCUT000000...	201.0	[0..1]	[110..1]
gi\|114591394 - gi\|114591394\|ref\|XP_001167427.1\| PREDICTED: similar to Ribosomal protein L35a isoform 4 [Pan troglod...	200.0	[0..1]	[110..38]
gi\|26338025 - gi\|26338025\|dbj\|BAC32698.1\| unnamed protein product [Mus musculus]	200.0	[0..1]	[110..1]
RL35A_BOVIN - 60S ribosomal protein L35a OS=Bos taurus GN=RPL35A PE=3 SV=1	200.0	[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...	199.0	[0..1]	[110..1]
gi\|89268250, gi\|... - gi\|89268250\|emb\|CAJ82856.1\| ribosomal protein L35 [Xenopus tropicalis], gi\|52346176\|ref\|NP_001005134...	197.0	[0..1]	[110..1]

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Predicted Domain #1

Region A:
Residues: [1-110]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSGRLWCKAT FAGYKRGLRN QREHTALLKI EGVYARDETE FYFGKRCAYV YKAKNNTVTP  60
   61 GGKPNRTRVI WGKVTRAHGN SGMVRAKFRS NLPAKAIGHR IRVMLYPSRI

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	20.69897
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: