Protein Info for GFF55 in Sphingobium sp. HT1-2

Annotation: LSU ribosomal protein L25p

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 50 100 150 203 TIGR00731: ribosomal protein bL25, Ctc-form" amino acids 7 to 185 (179 residues), 139.4 bits, see alignment E=5e-45 PF01386: Ribosomal_L25p" amino acids 7 to 94 (88 residues), 89.3 bits, see alignment E=1.8e-29 PF14693: Ribosomal_TL5_C" amino acids 103 to 187 (85 residues), 87.1 bits, see alignment E=8.1e-29

Best Hits

Swiss-Prot: 72% identical to RL25_SPHAL: 50S ribosomal protein L25 (rplY) from Sphingopyxis alaskensis (strain DSM 13593 / LMG 18877 / RB2256)

KEGG orthology group: K02897, large subunit ribosomal protein L25 (inferred from 84% identity to sjp:SJA_C1-17820)

Predicted SEED Role

"LSU ribosomal protein L25p" 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 (203 amino acids)

>GFF55 LSU ribosomal protein L25p (Sphingobium sp. HT1-2)
MSEQLTLSAEARDRAGKGASRALRREGRVPAVIYGMNEEPLSIHVEEKLLNKQLGTGHFF
NSVIMVEVGGKTVRTLAKDVAFHPVTDRPLHADFLRVSEHATVTVAVPVRFENEDASPGL
KKGGVLNVVRHDVELVVDAAEIPDDVVVDLKGFEVGDSIHISAVTLPKGAKAAIEDRDFT
IATIVAPSALKSAEGEAAEGEGE