Protein Info for GFF1885 in Sphingobium sp. HT1-2

Annotation: LSU ribosomal protein L21p

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 25 50 75 98 PF00829: Ribosomal_L21p" amino acids 1 to 97 (97 residues), 116 bits, see alignment E=3.9e-38 TIGR00061: ribosomal protein bL21" amino acids 2 to 97 (96 residues), 88.6 bits, see alignment E=1.6e-29

Best Hits

Swiss-Prot: 84% identical to RL21_NOVAD: 50S ribosomal protein L21 (rplU) from Novosphingobium aromaticivorans (strain ATCC 700278 / DSM 12444 / CIP 105152 / NBRC 16084 / F199)

KEGG orthology group: K02888, large subunit ribosomal protein L21 (inferred from 94% identity to sjp:SJA_C1-27210)

Predicted SEED Role

"LSU ribosomal protein L21p" 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)

Compare to protein 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 (98 amino acids)

>GFF1885 LSU ribosomal protein L21p (Sphingobium sp. HT1-2)
MFAIVRTGGKQYRVAAGDKIVVEKLAGEAGDKVTLDDVLLAGEGGDLKDAAKLTVAAEII
AQAKGEKVIVFKKRRRHNYRRKNGHRQNHTILKIVSIA