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View Structure Prediction Details

Protein: LSM1
Organism: Saccharomyces cerevisiae
Length: 172 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 LSM1.

Description E-value Query
Range		 Subject
Range
gi|151945004 - gi|151945004|gb|EDN63259.1| conserved protein [Saccharomyces cerevisiae YJM789]
gi|190409383 - gi|190409383|gb|EDV12648.1| conserved hypothetical protein [Saccharomyces cerevisiae RM11-1a]
LSM1_YEAST - Sm-like protein LSm1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=LSM1 PE=1 SV=1
LSM1 - Lsm (Like Sm) protein; forms heteroheptameric complex (with Lsm2p, Lsm3p, Lsm4p, Lsm5p, Lsm6p, and L...
 1.0E-43 [1..172] [1..172]
SPBC3D6.08c - mRNA decapping complex subunit
LSM1_SCHPO - U6 snRNA-associated Sm-like protein LSm1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=l...
 1.0E-28 [37..172] [7..140]
gi|7507776 - gi|7507776|pir||T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans
 3.0E-23 [39..136] [2..101]
gi|190247 - gi|190247|gb|AAA60151.1| snRNP polypeptide B [Homo sapiens]
 3.0E-23 [39..132] [2..97]
RSMB_MACEU - Small nuclear ribonucleoprotein-associated protein B' OS=Macropus eugenii GN=SNRPB PE=2 SV=1
 1.0E-22 [39..136] [2..101]
LSM1A_ARATH - Sm-like protein LSM1A OS=Arabidopsis thaliana GN=LSM1A PE=1 SV=1
 2.0E-22 [43..155] [12..121]
gi|3142634 - gi|3142634|gb|AAC78612.1| small nuclear ribonucleoprotein N [Mus musculus]
 6.0E-22 [39..132] [2..97]

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Predicted Domain #1
Region A:
Residues: [1-172] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSANSKDRNQ SNQDAKRQQQ NFPKKISEGE ADLYLDQYNF TTTAAIVSSV DRKIFVLLRD  60
   61 GRMLFGVLRT FDQYANLILQ DCVERIYFSE ENKYAEEDRG IFMIRGENVV MLGEVDIDKE 120
  121 DQPLEAMERI PFKEAWLTKQ KNDEKRFKEE THKGKKMARH GIVYDFHKSD MY

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 85.616428
Match: 1i8fA_
Description: Archaeal homoheptameric Sm 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
YRC Informatics Platform - Version 3.0
Created and Maintained by: Michael Riffle