Protein Info for mRNA_4545 in Rhodosporidium toruloides IFO0880

Name: 12913
Annotation: K11088 SNRPD3, SMD3 small nuclear ribonucleoprotein D3

These analyses and tools can help you predict a protein's function, but be skeptical. For enzymes, over 10% of annotations from KEGG or SEED are probably incorrect. For other types of proteins, the error rates may be much higher. MetaCyc and Swiss-Prot have low error rates, but the best hits in these databases are often quite distant, so this protein's function may not be the same. TIGRFam has low error rates. Finally, many experimentally-characterized proteins are not in any of these databases. To find relevant papers, use PaperBLAST.

Protein Families and Features

1 50 100 126 PF01423: LSM" amino acids 10 to 73 (64 residues), 49 bits, see alignment E=2e-17

Best Hits

Swiss-Prot: 56% identical to SMD3_HUMAN: Small nuclear ribonucleoprotein Sm D3 (SNRPD3) from Homo sapiens

KEGG orthology group: K11088, small nuclear ribonucleoprotein D3 (inferred from 69% identity to lbc:LACBIDRAFT_305908)

Predicted SEED Role

No annotation

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

Search CDD (the Conserved Domains Database, which includes COG and superfam)

Search structures

Predict protein localization: PSORTb (Gram-negative bacteria)

Predict transmembrane helices and signal peptides: Phobius

Check the current SEED with FIGfam search

Find homologs in fast.genomics or the ENIGMA genome browser

Find the best match in UniProt

Protein Sequence (126 amino acids)

>mRNA_4545 K11088 SNRPD3, SMD3 small nuclear ribonucleoprotein D3 (Rhodosporidium toruloides IFO0880)
MANLGVPVRLLHEALGHTITVEGKNGVVYRGKLFEAEDSMSISLTNCTVTHRDGRVTQLD
QVYIRGAAIRFYVVPDMLSQAPMFKRGIASGGMKGRGIGTARGRATIMRAQSRRGRGGAG
RPPIRR