Protein Info for HP15_3552 in Marinobacter adhaerens HP15

Annotation: exoribonuclease 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 50 100 150 200 250 300 350 400 450 500 550 600 661 TIGR00358: VacB and RNase II family 3'-5' exoribonucleases" amino acids 10 to 647 (638 residues), 477.5 bits, see alignment E=3.1e-147 PF08206: OB_RNB" amino acids 26 to 73 (48 residues), 37.5 bits, see alignment 3.2e-13 PF17876: CSD2" amino acids 101 to 175 (75 residues), 64.1 bits, see alignment E=2e-21 PF00773: RNB" amino acids 197 to 524 (328 residues), 282.9 bits, see alignment E=7.5e-88 PF00575: S1" amino acids 570 to 644 (75 residues), 32.2 bits, see alignment E=2.3e-11

Best Hits

KEGG orthology group: K12573, ribonuclease R [EC: 3.1.-.-] (inferred from 83% identity to maq:Maqu_3792)

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 E4PG52 at UniProt or InterPro

Protein Sequence (661 amino acids)

>HP15_3552 exoribonuclease R (Marinobacter adhaerens HP15)
MLNADALSQLRQLKSDIKDNKVVFPGTVKATNGRFGFVALDEGRDVFLPPEEMQKVLPGD
RVNVTEQEVEKGKTQGVVDELLETRLNTFVGRYLVKGKGHFVVPETPGINRWIFIPPKER
MNAQQDDYIYCQIHKHPIKDGKGQAKVLRVIGKAGEPGIERSFTLATFDLADTWPDAVRA
QADSLGEGDIESRETGREDRTDRPYVTIDSPGTQDMDDALLAEPNATGWTLSIAIADPTA
VIDTDSPAEQEAFNRATAIYFPGEPLPMLPDSISTRLCSLMPEAKRLSLVCDLQVNNDGS
LGDYSFHQAVIQSKGKLSYELVSNLIEGREDDDIKALPEAVANSLDQLHQAATALRKWRN
EHALLSGDRPEFRLRLDENKRIRLIEPSIQNEAHRLVEECMVAANRCAADFLSNHTAGLF
IQHPGLRDDRADNIRSLIDSHAPHLSGVDAHQAEGFRKLMKETDSLEAEVPVKAILSRQL
ARAELSFKPAPHQGMGLDAYTTFTSPLRKFSDFYVHRLIKAALWDTPMKALTEDQLEALQ
AAQIRARQAANSLESWLKSDFAKTLGEEPMAGVISRTVPAGFFVRLDANGLEGFVSCKDL
DGKYSFDPVTMRLIHNKNGRIFQLEQPVTVSFSGVDDERRQINFKLVEAQEIASQSSTDG
G