YRC Logo
PROTEIN SEARCH:
Descriptions Names[Advanced Search]

View Structure Prediction Details

Protein: LSM2
Organism: Saccharomyces cerevisiae
Length: 95 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



[What does the above image mean?]


[Show Ginzu Version Information]


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 LSM2.

Description E-value Query
Range
Subject
Range
gi|11138539 - gi|11138539|gb|AAG31434.1|AF204157_1 snRNP core protein SMX5d [Mus musculus]
7.0E-27 [2..95] [26..119]
gi|109509738, gi... - gi|149028025|gb|EDL83476.1| rCG38360, isoform CRA_b [Rattus norvegicus], gi|109509738|ref|XP_0010608...
LSM2 - LSM2 homolog, U6 small nuclear RNA associated (S. cerevisiae)
gi|178056596, gi... - gi|178056596|ref|NP_001116608.1| LSM2 homolog, U6 small nuclear RNA associated [Sus scrofa], gi|1472...
gi|109070461 - gi|109070461|ref|XP_001105870.1| PREDICTED: LSM2 homolog, U6 small nuclear RNA associated (S. cerevi...
CCDS4722.1_1 - null
ENSCJAT00000004970 - null
ENSPTRT00000033228 - null
tr|G1SHV1|G1SHV1... - pep:novel chromosome:oryCun2:12:20606176:20612202:-1 gene:ENSOCUG00000002583 transcript:ENSOCUT00000...
LSM2_MOUSE - U6 snRNA-associated Sm-like protein LSm2 OS=Mus musculus GN=Lsm2 PE=1 SV=1
gi|226443174, gi... - gi|226443174|ref|NP_001140070.1| U6 snRNA-associated Sm-like protein LSm2 [Salmo salar], gi|22122167...
gi|151557081, gi... - gi|76650929|ref|XP_581859.2| PREDICTED: similar to snRNP core Sm protein homolog Sm-X5 [Bos taurus],...
gi|73972304 - gi|73972304|ref|XP_532081.2| PREDICTED: similar to U6 snRNA-associated Sm-like protein LSm2 (SnRNP c...
gi|124000059, gi... - gi|208968015|dbj|BAG73846.1| U6 snRNA-associated Sm-like protein LSm2 [synthetic construct], gi|1240...
9.0E-25 [1..95] [1..95]
CG10418-PA - This gene is referred to in FlyBase by the symbol Dmel\CG10418 (CG10418, FBgn0036277). It is a prote...
gi|220951570 - gi|220951570|gb|ACL88328.1| CG10418-PA [synthetic construct]
gi|195493810, gi... - gi|195493810|ref|XP_002094573.1| GE21899 [Drosophila yakuba], gi|194180674|gb|EDW94285.1| GE21899 [D...
gi|195589798, gi... - gi|195589798|ref|XP_002084636.1| GD14374 [Drosophila simulans], gi|194196645|gb|EDX10221.1| GD14374 ...
gi|194119204, gi... - gi|195327103|ref|XP_002030261.1| GM25341 [Drosophila sechellia], gi|194119204|gb|EDW41247.1| GM25341...
gi|195376259, gi... - gi|195376259|ref|XP_002046914.1| GJ13149 [Drosophila virilis], gi|194154072|gb|EDW69256.1| GJ13149 [...
7.0E-24 [1..95] [1..95]
gi|34902916, gi|... - gi|6016876|dbj|BAA85219.1| unnamed protein product [Oryza sativa (japonica cultivar-group)], gi|3490...
3.0E-23 [1..92] [1..89]
gi|2113818 - gi|2113818|emb|CAB05859.1| AmphiBrf43 [Branchiostoma floridae]
1.0E-22 [1..91] [1..91]
LSM4_TOBAC - Probable U6 snRNA-associated Sm-like protein LSm4 OS=Nicotiana tabacum PE=2 SV=1
3.0E-22 [1..94] [1..90]
gi|13161882 - gi|13161882|emb|CAC33027.1| Lsm4 protein [Takifugu rubripes]
3.0E-22 [1..92] [1..90]
LSM4_FAGSY - Probable U6 snRNA-associated Sm-like protein LSm4 OS=Fagus sylvatica GN=LSM4 PE=2 SV=1
4.0E-22 [1..94] [1..90]

Back

Predicted Domain #1
Region A:
Residues: [1-95]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MLFFSFFKTL VDQEVVVELK NDIEIKGTLQ SVDQFLNLKL DNISCTDEKK YPHLGSVRNI  60
   61 FIRGSTVRYV YLNKNMVDTN LLQDATRREV MTERK

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 48.69897
Match: 1b34A_
Description: D1 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 3.79237851568526 bayes_pls_golite062009
binding 2.63965180938967 bayes_pls_golite062009
mRNA binding 2.57166143288861 bayes_pls_golite062009
protein binding 0.418315253537627 bayes_pls_golite062009

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