Protein Info for SO0232 in Shewanella oneidensis MR-1

Name: rplD
Annotation: ribosomal protein L4 (NCBI ptt file)

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 50 100 150 201 PF00573: Ribosomal_L4" amino acids 13 to 198 (186 residues), 243.1 bits, see alignment E=9e-77 TIGR03953: 50S ribosomal protein uL4" amino acids 13 to 198 (186 residues), 244.9 bits, see alignment E=1.9e-77

Best Hits

Swiss-Prot: 100% identical to RL4_SHEON: 50S ribosomal protein L4 (rplD) from Shewanella oneidensis (strain MR-1)

KEGG orthology group: K02926, large subunit ribosomal protein L4 (inferred from 100% identity to she:Shewmr4_0200)

MetaCyc: 86% identical to 50S ribosomal subunit protein L4 (Escherichia coli K-12 substr. MG1655)

Predicted SEED Role

"LSU ribosomal protein L4p (L1e)" in subsystem Ribosome LSU bacterial

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

See Q8EK67 at UniProt or InterPro

Protein Sequence (201 amino acids)

>SO0232 ribosomal protein L4 (NCBI ptt file) (Shewanella oneidensis MR-1)
MELVLKDAQSALEVSETTFGRDFNEALVHQVVVAYAANARQGTRAQKTRAEVTGSGKKPW
RQKGTGRARAGGVKGPIWRGGGVTFAAKTQDHSQKVNKKMYRGALKSILSELVRQDRLVV
VESFSVEAPKTKELKAKLKAMNLEDVLIVTSEVDENLFLAARNLYKVDVRDVAGLDPVSL
IAFNTVLVTADAVKQIEEMLA