Protein Info for LRK53_RS09655 in Rhodanobacter sp000427505 FW510-R12

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 800 856 TIGR02063: ribonuclease R" amino acids 18 to 717 (700 residues), 857.6 bits, see alignment E=7.5e-262 TIGR00358: VacB and RNase II family 3'-5' exoribonucleases" amino acids 75 to 717 (643 residues), 723.1 bits, see alignment E=2.9e-221 PF08206: OB_RNB" amino acids 86 to 143 (58 residues), 70.8 bits, see alignment 1.2e-23 PF17876: CSD2" amino acids 164 to 237 (74 residues), 75 bits, see alignment E=8.2e-25 PF00773: RNB" amino acids 259 to 587 (329 residues), 358.7 bits, see alignment E=6.6e-111 PF00575: S1" amino acids 635 to 714 (80 residues), 47.2 bits, see alignment E=4.7e-16

Best Hits

Swiss-Prot: 50% identical to RNR_ECOLI: Ribonuclease R (rnr) from Escherichia coli (strain K12)

KEGG orthology group: K12573, ribonuclease R [EC: 3.1.-.-] (inferred from 62% identity to psu:Psesu_0923)

MetaCyc: 50% identical to RNase R (Escherichia coli K-12 substr. MG1655)
3.1.13.-

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

Find the best match in UniProt

Protein Sequence (856 amino acids)

>LRK53_RS09655 ribonuclease R (Rhodanobacter sp000427505 FW510-R12)
MRDPHADREARRYARPIPSREAILALLEQRGELLTEARIAEALDIHDETDLEALRKRLAA
MVRDGQLLLGRRGGYAPTQKLDLIAGVVLANAEGYGFLRPDEGGDDLYLSPQQMRAVMHG
DRVLASVVGIDRRGRRQGAIAEVLQRRSPRLVGRVVIDNGVTLVTPDDRRLNQDVMIKPG
RELGARSGQIVVAEITDPPTLQRGPIGEIRTVLGERLQPSLVVEMAIASHDLPHEWPAEV
LRDAAQVEPAVTAAEREGRTDLRQLPLVTIDGADARDFDDAVYAEPRRGGGWRLIVAIAD
VSHYVQVGNALDKEAFERSTSTYFPGFVVPMLPETLSNGICSLNPSVERLCMVCEMLVDT
EGNVTKSKFYDAVMLSHARLTYDKVWQAVGLREPDARHEVADVLPQLEHLHALYKAMAGQ
RKRRGAIDFETPEVKFRLDQTGGVESMGATERNDAHKLIEECMIAANVQAALFLEKKKIP
ALFRAHEPPPAEKYEDLQQFLREFKLRMPPVDEVTPADFAEILALVQERPERELIQSVLL
RAQSMAAYQPDNRGHFGLALQAYAHFTSPIRRYPDLLVHRAIRYALSGGKPSDYTYTSAE
MAAMAIHCSQRERRAEEAERDVDERFKCAWMEKHIGSEFDGVVTGVTSFGLFVELDESKV
SGLVHISQLMNDYYHFDATRKLLKGERTGAQFRLGDHVRIKVLRASLEDRKIDFRLVSPR
TPAAPPAGSGKAYDYAAAGERYSLPKKAAATAKAPGMFGRAAKAIGRAFGRKEVEVAAPP
APAPRKAAMSDHPPPRAAAATRQQAGGGQQQGRKVEPSSDRRPRKGDSAKRGPVPAAAPQ
TPKKHAGRKSKPKGKS