YRC Public Data Repository - Protein Structure Prediction

Protein:	lsm8
Organism:	Schizosaccharomyces pombe
Length:	94 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 lsm8.

Description	E-value	Query Range	Subject Range
gi\|50728156 - gi\|50728156\|ref\|XP_416009.1\| PREDICTED: similar to U6 snRNA-associated Sm-like protein LSm8 [Gallus ...	109.0	[0..3]	[94..137]
gi\|109067976 - gi\|109067976\|ref\|XP_001097050.1\| PREDICTED: similar to U6 snRNA-associated Sm-like protein LSm8 [Mac...	108.0	[0..3]	[94..237]
RSMB_MACEU - Small nuclear ribonucleoprotein-associated protein B' OS=Macropus eugenii GN=SNRPB PE=2 SV=1	105.0	[0..3]	[91..9]
gi\|112305, gi\|206694 - gi\|206694\|gb\|AAA42059.1\| snRNP-associated polypeptide N, pir\|\|A35448 small nuclear ribonucleoprotein...	105.0	[0..3]	[91..9]
gi\|54641159, gi\|... - gi\|54641159\|gb\|EAL29909.1\| GA15189 [Drosophila pseudoobscura pseudoobscura], gi\|125976760\|ref\|XP_001... gi\|195170789, gi... - gi\|195170789\|ref\|XP_002026194.1\| GL16212 [Drosophila persimilis], gi\|194111074\|gb\|EDW33117.1\| GL1621... gi\|125976760\|ref... - GA15189-PA [Drosophila pseudoobscura], GA15189 [Drosophila pseudoobscura pseudoobscura]	105.0	[0..3]	[94..4]
gi\|6686407, gi\|2... - gi\|6686407\|gb\|AAF23841.1\|AC007234_13 F1E22.8 [Arabidopsis thaliana], pir\|\|G96681 protein F1E22.8 [im...	104.0	[0..1]	[94..489]
gi\|194747038, gi... - gi\|194747038\|ref\|XP_001955961.1\| GF24963 [Drosophila ananassae], gi\|190623243\|gb\|EDV38767.1\| GF24963... gi\|190652982, gi... - gi\|194864976\|ref\|XP_001971199.1\| GG14562 [Drosophila erecta], gi\|190652982\|gb\|EDV50225.1\| GG14562 [D... CG2021-PA - This gene is referred to in FlyBase by the symbol Dmel\CG2021 (CG2021, FBgn0035271). It is a protein... gi\|195587050, gi... - gi\|195587050\|ref\|XP_002083278.1\| GD13439 [Drosophila simulans], gi\|194195287\|gb\|EDX08863.1\| GD13439 ... gi\|220951344 - gi\|220951344\|gb\|ACL88215.1\| CG2021-PA [synthetic construct] gi\|195336718, gi... - gi\|195336718\|ref\|XP_002034980.1\| GM14170 [Drosophila sechellia], gi\|194128073\|gb\|EDW50116.1\| GM14170... gi\|194179293, gi... - gi\|195490564\|ref\|XP_002093192.1\| GE20916 [Drosophila yakuba], gi\|194179293\|gb\|EDW92904.1\| GE20916 [D...	102.0	[0..3]	[94..4]
gi\|109139334 - gi\|109139334\|gb\|ABE96774.2\| U6 snRNA-associated Sm-like protein LSm8 [Bos taurus]	102.0	[0..3]	[94..35]
gi\|42548789, gi\|... - gi\|46130650\|ref\|XP_389105.1\| hypothetical protein FG08929.1 [Gibberella zeae PH-1], gi\|42548789\|gb\|E...	102.0	[0..1]	[84..45]

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Predicted Domain #1

Region A:
Residues: [1-94]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSLADFMEQR VQVITNDGRV VLGSLKGFDH TTNLILSDSF ERIISMDQDM ETIPLGVYLL  60
   61 RGENVAMVGL VNEELDSEIE WTKIRGEAIP DVVH

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	18.154902
Match:	1d3bB
Description:	B core SNRNP protein
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
	9.36615441177233	bayes_pls_golite062009
RNA binding	5.81718051012035	bayes_pls_golite062009
nucleic acid binding	2.69031444148163	bayes_pls_golite062009
mRNA binding	2.57166143288861	bayes_pls_golite062009
binding	2.04681172391952	bayes_pls_golite062009
protein binding	0.187097443004706	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: