Protein Info for ABID97_RS17200 in Variovorax sp. OAS795

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 755 TIGR00358: VacB and RNase II family 3'-5' exoribonucleases" amino acids 3 to 675 (673 residues), 649.7 bits, see alignment E=4.7e-199 TIGR02063: ribonuclease R" amino acids 3 to 513 (511 residues), 628.9 bits, see alignment E=1.1e-192 PF08206: OB_RNB" amino acids 7 to 64 (58 residues), 76.9 bits, see alignment 1.5e-25 PF17876: CSD2" amino acids 85 to 158 (74 residues), 78.1 bits, see alignment E=9.1e-26 PF00773: RNB" amino acids 180 to 511 (332 residues), 354.5 bits, see alignment E=1.2e-109 PF00575: S1" amino acids 594 to 672 (79 residues), 37.4 bits, see alignment E=5.6e-13

Best Hits

KEGG orthology group: K12573, ribonuclease R [EC: 3.1.-.-] (inferred from 96% identity to vpe:Varpa_3333)

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)

Search 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 (755 amino acids)

>ABID97_RS17200 ribonuclease R (Variovorax sp. OAS795)
MLDEFEGTVQGHRDGHGFVQRDDGEADIYLPPNEMRAVLHKDRVKARVVRQDRRGRPEGR
VVEIVERPEQPIIGRLLHEGGIWLVAPEDKRYGQDVLIPKGATGPAKVGQVVVVQLTEPP
ALFGQPVGRVKEVLGEIDDPGMEIEIAVRKYGVPHEFSAECLAEAKALPEKVRPADKKGR
IDLTDVPLVTIDGEDARDFDDAVYCEPAKVGRGKGWRLLVAIADVSAYVQTGSAIDIDAY
DRATSVYFPRRVIPMLPEKLSNGLCSLNPEVERLCMVCDMLVAADGEIYAYQFYPAVMFS
HARFTYTEVAAILGNTRGPEAAKRKDRVKDLLNLADVYKALLKQRSKRGAVDFETTETQI
ICDDAGRIEKIVPRTRNEAHRLIEEAMLAANVCSADFIAEGKHPGLFRVHEGPTPEKKEI
LRGYLKAMGVGLSITDDPRPGEFQAIAEATKERPDAQQIHTMLLRSMQQAIYTPINSGHF
GLAYEAYTHFTSPIRRYPDLLVHRVIKAILGKTRYQLPMLPTPGEAHAKLAKRLASRVKA
PTTKPQKATVAPTKEVLAWEAAGLHCSANERRADEASRDVEAWLKCKYMREHLGEEYGGV
VTSATTFGIFVTLDAMYVEGLVHITELGGEYFKFDEMRQELRGERTGIRYAIGTRVRVQV
SRVDLDGRKIDFRLVREGEELTSRAMKDKGVGSAGVPVKASAKRSSRHKAEAVPEPRIER
GATAVAVGPQSAMQAFKSAVKKAANKMKGRKPRRA