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View Structure Prediction Details

Protein: LSM8
Organism: Saccharomyces cerevisiae
Length: 109 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 LSM8.

Description E-value Query
Range
Subject
Range
gi|45185563, gi|... - gi|45185563|ref|NP_983279.1| ACL125Cp [Ashbya gossypii ATCC 10895], gi|44981281|gb|AAS51103.1| ACL12...
gi|44981281 - gi|44981281|gb|AAS51103.1| ACL125Cp [Ashbya gossypii ATCC 10895]
4.0E-20 [1..107] [1..102]
RSMB_MACEU - Small nuclear ribonucleoprotein-associated protein B' OS=Macropus eugenii GN=SNRPB PE=2 SV=1
9.0E-20 [2..88] [6..103]
gi|190247 - gi|190247|gb|AAA60151.1| snRNP polypeptide B [Homo sapiens]
1.0E-19 [2..81] [6..96]
LSM8 - Lsm (Like Sm) protein; forms heteroheptameric complex (with Lsm2p, Lsm3p, Lsm4p, Lsm5p, Lsm6p, and L...
3.0E-19 [1..109] [20..128]
gi|3142634 - gi|3142634|gb|AAC78612.1| small nuclear ribonucleoprotein N [Mus musculus]
1.0E-18 [2..81] [6..96]
gi|49898984, gi|... - gi|49898984|gb|AAH76700.1| SNRPN upstream reading frame [Xenopus tropicalis], gi|47575712|ref|NP_001...
2.0E-18 [2..81] [6..96]
gi|50540540, gi|... - gi|8099650|gb|AAF72188.1| snRNP-associated protein; SmB [Danio rerio], gi|50540540|ref|NP_991230.1| ...
2.0E-18 [2..81] [6..96]
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...
2.0E-18 [3..86] [2..91]

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Predicted Domain #1
Region A:
Residues: [1-109]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSATLKDYLN KRVVIIKVDG ECLIASLNGF DKNTNLFITN VFNRISKEFI CKAQLLRGSE  60
   61 IALVGLIDAE NDDSLAPIDE KKVPMLKDTK NKIENEHVIW EKVYESKTK

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 16.0
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

YRC Informatics Platform - Version 3.0
Created and Maintained by: Michael Riffle