Protein Info for PP_2025 in Pseudomonas putida KT2440

Annotation: Exonuclease SbcD

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 50 100 150 200 250 300 350 412 TIGR00619: exonuclease SbcCD, D subunit" amino acids 1 to 257 (257 residues), 179.5 bits, see alignment E=5.4e-57 PF00149: Metallophos" amino acids 1 to 232 (232 residues), 52.2 bits, see alignment E=1.1e-17 PF12320: SbcD_C" amino acids 284 to 385 (102 residues), 57.5 bits, see alignment E=1.5e-19

Best Hits

KEGG orthology group: K03547, exonuclease SbcD (inferred from 99% identity to ppf:Pput_3717)

Predicted SEED Role

"Exonuclease SbcD" in subsystem DNA repair, bacterial

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 Q88LB0 at UniProt or InterPro

Protein Sequence (412 amino acids)

>PP_2025 Exonuclease SbcD (Pseudomonas putida KT2440)
MRLFHTSDWHLGQSLHGQERDFEHACFLDWLLGQLRLRQPDALLIAGDIFDTVNPPVKAQ
ERLYDFIVQAHEQQPKLDIVMIAGNHDSGSRIELPAALMRRLRTHALGRVHWLDEGQLDA
ERLLIPLTNGRGKVAAWCLALPFLRPAEVTGPQLGDDYLQGITQVHQQLIAAALKKRKKD
QALIAISHAHMAGGAVSEDSERSLIIGNAEALPAKLFDKAISYVALGHLHKPQKVNREER
IRYSGSPIPLSFAEINYPHQVLEVELDGNGLVSVEPRPVPRAVALQRVGPAPLGELLQQL
ADLPVVDLLEDPNRQPWLEVRVLLDEPQPDLRQQIETALEGKAVRLIRISAEYAGRNNAE
DDDLAFVELAQMTPQDLFSRAWEQAYGNPADDQALADFALLLQDVQQEEEQP