Protein Info for AMB_RS04465 in Magnetospirillum magneticum AMB-1

Annotation: ribonuclease R

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 742 TIGR02063: ribonuclease R" amino acids 10 to 714 (705 residues), 680.5 bits, see alignment E=2.9e-208 TIGR00358: VacB and RNase II family 3'-5' exoribonucleases" amino acids 120 to 713 (594 residues), 483.7 bits, see alignment E=8.7e-149 PF00773: RNB" amino acids 255 to 582 (328 residues), 330.6 bits, see alignment E=1.8e-102 PF00575: S1" amino acids 632 to 686 (55 residues), 36.5 bits, see alignment 7.6e-13

Best Hits

KEGG orthology group: K12573, ribonuclease R [EC: 3.1.-.-] (inferred from 100% identity to mag:amb0877)

Predicted SEED Role

"3'-to-5' exoribonuclease RNase R" in subsystem RNA processing and degradation, bacterial

Isozymes

Compare fitness of predicted isozymes for: 3.1.-.-

Use Curated BLAST to search for 3.1.-.-

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

See Q2W8Z4 at UniProt or InterPro

Protein Sequence (742 amino acids)

>AMB_RS04465 ribonuclease R (Magnetospirillum magneticum AMB-1)
MKKPKIVPIPSKQEILDFIRSQPGRVGKRELARAFNLRGSDKIDLKAILKELEREGVVER
GQKRRFASPGTLPDVGVVEIIGTDSDGELLARPLNYEGEGRPPRIFMAPFRAGEAAVGVG
DRVLAKLKRVRGEDVYEARAIRIIGEARARVLGVFEPNPDGSGRLRPTSRKEKAEYMVPR
GETGDAKAGELVLADIMPGRLYGMRTASVKERMGLLGAPRSVSLVAIHTNDVPFEFPEAA
LQQAAAEGPAPMNERTDLRSIPLVTIDGEDARDFDDAVFAEPDPDPKNPGGWHCMVAIAD
VSWYVRPGDSLDKEAFKRGNSVYFPDRVVPMLPEELSNGWCSLKPDEDRPCMAVHFWLDA
LGNKLHHRFVRGMMRSVARLTYTQVQAAKDGTPDDRTGPLLAPVIEPLYGAWAALFRERK
ERGVLELDIPERKVTITPEGKVEAITERERFDSHRLIEDFMIMANVCAAETLEKVHKPCM
YRIHDLPSQEKLDGLREFLSSMDLKLAKGQVLRPAHFNRILEAVEGTANSHLVSEVILRS
QAQAQYSPENIGHFGLGLARYAHFTSPIRRYADLLVHRALISGLHLGEGGLPADAVAEFA
EWGEHISVTERRAATAEREAVDRYVTAFLADKVGATFAGKVSGVTRFGLFVTLDQTGADG
LVPISTLPEDFYVHDEVHHCLVGKRTRKTFQLGQKLDVELAEANTLTGSMVFRLGGAGER
GLRPPRPPQSGRPKRSFRSRTR