Protein Info for PFR28_01832 in Pseudomonas sp. RS175

Annotation: RNA-splicing ligase RtcB

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 50 100 150 200 250 300 350 420 PF01139: RtcB" amino acids 45 to 420 (376 residues), 447 bits, see alignment E=4.4e-138

Best Hits

Swiss-Prot: 70% identical to RTCB_ECOLI: RNA-splicing ligase RtcB (rtcB) from Escherichia coli (strain K12)

KEGG orthology group: K14415, protein RtcB (inferred from 88% identity to pfo:Pfl01_1946)

MetaCyc: 70% identical to RNA-splicing ligase (Escherichia coli K-12 substr. MG1655)
RXN-17905 [EC: 6.5.1.8]; 6.5.1.8 [EC: 6.5.1.8]

Predicted SEED Role

"Protein RtcB" in subsystem RNA 3'-terminal phosphate cyclase

Isozymes

No predicted isozymes

Use Curated BLAST to search for 6.5.1.8

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 (420 amino acids)

>PFR28_01832 RNA-splicing ligase RtcB (Pseudomonas sp. RS175)
MKAARPSNRSRTMEERTYELLEVANGKPVKLWTQGVPVQAEARQQLINTAKMPFIFKHLA
VMPDVHLGKGSTIGSVIPTVGAIIPAAVGVDIGCGMIAARTSLTATDLPDNLHGLRSAIE
KAVPHGRTVSHGGRDKGAWNSIPPQADQAWGALAERFKAITDKYPKLARSNNRQHLGTLG
SGNHFIEVCLDEANRVWFMLHSGSRGVGNAIGSLFIQLAQADMRQHLANLPDRDLAYFEE
GSRHFDDYVQAVDWAQDFARQNRALMMDAVIRATRQVITKPFEVALEAVNCHHNYVQKER
HFGRDVLVTRKGAVSAHKGELGIIPGSMGAKSFIVRGLGNEQSFCSCSHGAGRVMSRTQA
KKRFSVEDQVRATAHVECRKDEAVIDEIPMAYKDIDQVMHAQRELVEVVHTLRQVVCVKG