Protein Info for Xcc-8004.2248.1 in Xanthomonas campestris pv. campestris strain 8004

Annotation: Ribonuclease D (EC 3.1.26.3)

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 50 100 150 200 250 300 362 TIGR01388: ribonuclease D" amino acids 4 to 356 (353 residues), 379.9 bits, see alignment E=7.4e-118 PF01612: DNA_pol_A_exo1" amino acids 9 to 167 (159 residues), 110.7 bits, see alignment E=7.4e-36 PF00570: HRDC" amino acids 212 to 256 (45 residues), 24.1 bits, see alignment 2.9e-09

Best Hits

Swiss-Prot: 90% identical to RND_XANOR: Ribonuclease D (rnd) from Xanthomonas oryzae pv. oryzae (strain KACC10331 / KXO85)

KEGG orthology group: K03684, ribonuclease D [EC: 3.1.13.5] (inferred from 99% identity to xca:xccb100_1872)

Predicted SEED Role

"Ribonuclease D (EC 3.1.26.3)" in subsystem Experimental tye or tRNA processing (EC 3.1.26.3)

MetaCyc Pathways

Isozymes

Compare fitness of predicted isozymes for: 3.1.26.3

Use Curated BLAST to search for 3.1.13.5 or 3.1.26.3

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

See A0A0H2X8E3 at UniProt or InterPro

Protein Sequence (362 amino acids)

>Xcc-8004.2248.1 Ribonuclease D (EC 3.1.26.3) (Xanthomonas campestris pv. campestris strain 8004)
VPHWITHPSELTERLQLRPSRIGLDTEFIRERTYWPQLALVQMAIGEEILLIDPLIPGMT
DALKDWLIAPDIVKVMHSASEDLVTFKCACGVLPRPLFDTQIAAALAGVGGGMGYQKLVQ
EVTGTLLTKGETRSDWMRRPLSPAQLEYAADDVRYLFAIHDALTAKLTAQDRLGWLAEDG
ERLLGTVEHDDGDRWPHVSLRTAQFLEPAAQRRLLRLLRWRDLQARQSDRPRSWILDNEL
ASQLARFPPADLDALMRQFDKFPKAPRKLANAVWEALNTPLPDEDHAPLAQASTDGNKAT
LKRLQDAVAQRSRELELPDGILASRRHLETLIEQRSWPAALGQWRRDALEADLLPLLDAA
TP