Protein Info for GFF6689 in Variovorax sp. SCN45

Annotation: LSU ribosomal maturation GTPase RbgA (B. subtilis YlqF)

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 50 100 150 200 250 320 TIGR03596: ribosome biogenesis GTP-binding protein YlqF" amino acids 3 to 278 (276 residues), 297.3 bits, see alignment E=5.3e-93 PF01926: MMR_HSR1" amino acids 116 to 170 (55 residues), 55.6 bits, see alignment E=5.5e-19 PF02421: FeoB_N" amino acids 116 to 169 (54 residues), 27.7 bits, see alignment 1.8e-10

Best Hits

KEGG orthology group: K14540, ribosome biogenesis GTPase A (inferred from 89% identity to vpe:Varpa_4183)

Predicted SEED Role

"50S ribosomal subunit maturation GTPase RbgA (B. subtilis YlqF)" in subsystem Conserved gene cluster associated with Met-tRNA formyltransferase or Universal GTPases

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 (320 amino acids)

>GFF6689 LSU ribosomal maturation GTPase RbgA (B. subtilis YlqF) (Variovorax sp. SCN45)
MAIQWFPGHMYATQKAITERVKDIDVVIELLDARLPGSSANPMLAELTARRPSLKVLNKQ
DLADPERTVRWLAHYNALPDTRAIGLDASQTTPAQQLVKACHELSPNRGGMAKPMRVLIC
GIPNVGKSTLINTLTGGRKAKTGDEAGITKLEQRITLADDFYLWDTPGMLWPRIIVPKSG
YNLAASGAVGRNAFDEEEVALELLNYLKVHYGAGVAARFKLVELDAPTMAEMKDEALLDT
IGRKRGALLGKGRVNLQKAAEIVMHEFRAGNLGRITLETPEEFAGWLAAGQLADAERAAK
KAARKQKGKPRPEATAGQDG