Protein Info for ABCV34_RS06625 in Castellaniella sp019104865 MT123

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 812 TIGR02063: ribonuclease R" amino acids 30 to 750 (721 residues), 799.1 bits, see alignment E=3.8e-244 TIGR00358: VacB and RNase II family 3'-5' exoribonucleases" amino acids 84 to 752 (669 residues), 656.6 bits, see alignment E=3.9e-201 PF08206: OB_RNB" amino acids 97 to 153 (57 residues), 74.2 bits, see alignment 1.1e-24 PF17876: CSD2" amino acids 174 to 247 (74 residues), 81.3 bits, see alignment E=8.7e-27 PF00773: RNB" amino acids 269 to 608 (340 residues), 345.2 bits, see alignment E=8.1e-107 PF00575: S1" amino acids 670 to 749 (80 residues), 46.5 bits, see alignment E=8e-16

Best Hits

KEGG orthology group: K12573, ribonuclease R [EC: 3.1.-.-] (inferred from 72% identity to put:PT7_0605)

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 (812 amino acids)

>ABCV34_RS06625 ribonuclease R (Castellaniella sp019104865 MT123)
MKKRTNNDNNRDASSSPTADLPPDFDPSVPSREQVLDTLRHAEKLLSLEALADATHASIP
LSTGFIRRIKAMERDGQIRFNAQGRLQICSDTAFISGTVQGHRDGYGFLIPDDGSRDLFL
STHEMAKVLHGDRVRVRVSGEYRGRPEGTIVEVLERRTVKLVGRFLKEHGTFVVAPEDQR
IKHDILIAPQDSGGAEPGQVVTVQILRQPASHIQPLGRVTEVLGEIDDPGMEIEIAVRKF
DVPVEFSKATLRQLNSIPDQVRDGETAGRIDLRDVPFITIDGEDARDFDDAVFCMATDLG
TEKRARPGWRLLVAIADVSHYVKPGSALDDDALDRGTSVYFPRRVIPMLPEALSNGICSL
NPDVDRLVMVCDMMIPASGAKAGTVVAYQFYEAVIHSHARTTYTDIWAALQQPTGPAAQN
LGDLYPHVQTAYELFQAFAQARRSRGAIDFDTVETRIVCNPLGRIERIEPYTRNDAHKLI
EECMLAANTCAADFIVRNKRQALFRVHDGPTPEKLQTLRDYLRHIGLTLDGGDDPQTADY
AKLIQASRARPDFELIQTMCLRSMQQAIYSPEQTGHFGLSYEHYAHFTSPIRRYPDLLVH
RVIRGILHKQRYQPPTLPGTPADPSLPAKVNEHDAWDALGALLSARERRADDASRDVEAW
LKCWFVREHVGEVFSGRISGVTSFGVFVTLDTLYVDGLVHISELGSDYFQYNEALNELRG
ERTGFRYQLGDALQVQVSRVDLEARRIDFRPVRGEDFKSLQAEIEGEPRGAQRPHKKAAG
AKPAALRGTTARQRRADAKRAARQETPRKRHN