Protein Info for CSW01_12240 in Vibrio cholerae E7946 ATCC 55056

Annotation: single-stranded-DNA-specific exonuclease RecJ

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 50 100 150 200 250 300 350 400 450 500 550 579 transmembrane" amino acids 185 to 202 (18 residues), see Phobius details TIGR00644: single-stranded-DNA-specific exonuclease RecJ" amino acids 20 to 575 (556 residues), 524.1 bits, see alignment E=1.7e-161 PF01368: DHH" amino acids 70 to 230 (161 residues), 84 bits, see alignment E=1.7e-27 PF02272: DHHA1" amino acids 356 to 452 (97 residues), 82.6 bits, see alignment E=3.8e-27 PF17768: RecJ_OB" amino acids 467 to 575 (109 residues), 77 bits, see alignment E=1.8e-25

Best Hits

Swiss-Prot: 64% identical to RECJ_DICD3: Single-stranded-DNA-specific exonuclease RecJ (recJ) from Dickeya dadantii (strain 3937)

KEGG orthology group: K07462, single-stranded-DNA-specific exonuclease [EC: 3.1.-.-] (inferred from 100% identity to vch:VC2417)

MetaCyc: 63% identical to ssDNA-specific exonuclease RecJ (Escherichia coli K-12 substr. MG1655)
Exodeoxyribonuclease VII. [EC: 3.1.11.6]

Predicted SEED Role

"Single-stranded-DNA-specific exonuclease RecJ (EC 3.1.-.-)" in subsystem DNA-replication or DNA Repair Base Excision or DNA repair, bacterial RecFOR pathway (EC 3.1.-.-)

Isozymes

Compare fitness of predicted isozymes for: 3.1.-.-, 3.1.11.6

Use Curated BLAST to search for 3.1.-.- or 3.1.11.6

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 (579 amino acids)

>CSW01_12240 single-stranded-DNA-specific exonuclease RecJ (Vibrio cholerae E7946 ATCC 55056)
MIEIQRRPEPDLSLLPDHIDPLLRRLYLSRGVSNVAQLEKAAKALHSFKQLHGIDRAVEL
LFAAIAEQKRIIVVGDFDADGATSSALSVLALRMLGSRNVDYLVPNRFEDGYGLSPEVVD
QAIERGAEMIMTVDNGVSSLEGVRYAKQKGLQVVVTDHHLPGQELPEVDAMVNPNLQQCA
FPSKALAGVGVAFYLMMALCVHMRQQGWFAAQGMVEPKLMELIDLVALGTVADVVPLDDN
NRILVHQGLQRIRAGLARPGIQALIEVAKRDARRLVAADFGFALGPRINAAGRLDDMSFG
VELLLCNNIHAARRMASELDGLNQTRKEIEEGMKQEAVAFCERLQLSDDRELPYGLVLFQ
RDWHQGVIGILASRIKEKYHRPVIAFAEGGDGKLKGSCRSVPGLHMRDALDKIDTQNPGI
ILKFGGHAMAAGLTIEEQNFERFCRLFDQLVREELDEAALKGIILSDGELKPEEFSLHTA
ELLRAGGPWGQAFPEPLFDGEFKVLHQKLVGEKHLKLMLEPLYKGFPTNVMIDGIAFNVD
LRRWPDASVKTVRLAYKLDINEFRGNQSLQLMIDHLEAK