Protein Info for GFF3533 in Sphingobium sp. HT1-2

Annotation: '3'-to-5' exoribonuclease RNase R' transl_table=11

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 804 PF17876: CSD2" amino acids 174 to 243 (70 residues), 51.9 bits, see alignment E=1e-17 PF00773: RNB" amino acids 263 to 619 (357 residues), 311.3 bits, see alignment E=1.2e-96 PF00575: S1" amino acids 682 to 754 (73 residues), 33.8 bits, see alignment E=5.5e-12

Best Hits

Predicted SEED Role

"3'-to-5' exoribonuclease RNase R" in subsystem RNA processing and degradation, 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 (804 amino acids)

>GFF3533 '3'-to-5' exoribonuclease RNase R' transl_table=11 (Sphingobium sp. HT1-2)
MASTQKQKKAAPARAKVRPAGFPTRQQVMDFITESDTPAGKREIAKAFGLKGQEKIALKA
LLKDMADEGLLDIGPARAFHKMGGVPKVTVLRIVDVDDTTLIATPERWEAEGQPAPRIRV
VERGKRGALTIGDRILARTEEAGKGWLAHPMKKLAKATEMLLGVVEEMADGKLWLRPVDK
RIRKDTPISDIGTAKKGDLVLAEPTGRPPRISARVTDILGDPFAPRSFSLIAIHKHGIPH
VFPEAVEEEAVTASKLPLHEDKREDLRHLPIVAIDPVDARDHDDAVWAAPDEDPTNEGGY
KAIVAIADVSYYVRPGSALDREARKRGNSVYFPDLVVPMLPHQLSSDMCSLRAGQDRAAM
ACHLVIDAQGKVKSFRFSRAIIRVAAVLAYENAQAAIDALSSVRPEPVEGQGRAEGEAAS
PAAQQAASTSLSPNGVDLVEHALKPLWACWALLRKAREKRDPLALDLPERRVVLDEWGKI
VSVAVRERLDAHMLIEDYMIAANVAAAKALEAKKAPVMYRVHETPGRDKLVALKEYLATF
DIDFALGQVIRPSTFNQLIKKVGESEEKEQIMTQILRSQTQAYYAPQNMGHFGLALGSYA
HFTSPIRRYADLLVHRALVGAYDLELPAPKGKAIPDRSSLSQEDYENMGRVGEMISGHER
RAMEAERETIDRYVAAFLSAHVGEVVKARITGVQNFGFFATVEGLGGDGLVPVSTLGAEH
FFFDEAGKALQGVESGDRYTVGQRLELRLAEADPINGALRFELPDNPAPRGSPLKRDRTR
PKIHRGRPTNIRHIGSSRGKHKKR