Protein Info for Psest_0318 in Pseudomonas stutzeri RCH2
Annotation: NAD-dependent DNA ligase (contains BRCT domain type II)
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
Best Hits
Swiss-Prot: 74% identical to LIGB_PSEU5: DNA ligase B (ligB) from Pseudomonas stutzeri (strain A1501)
KEGG orthology group: K01972, DNA ligase (NAD+) [EC: 6.5.1.2] (inferred from 74% identity to psa:PST_3931)MetaCyc: 41% identical to DNA ligase B (Escherichia coli K-12 substr. MG1655)
DNA ligase (NAD(+)). [EC: 6.5.1.2, 6.5.1.6]
Predicted SEED Role
"DNA ligase (EC 6.5.1.2)" in subsystem DNA Repair Base Excision (EC 6.5.1.2)
MetaCyc Pathways
- NAD salvage pathway II (PNC IV cycle) (4/5 steps found)
- NAD salvage pathway III (to nicotinamide riboside) (2/3 steps found)
- NAD salvage pathway I (PNC VI cycle) (4/7 steps found)
- NAD salvage (plants) (4/11 steps found)
Isozymes
Compare fitness of predicted isozymes for: 6.5.1.2
Use Curated BLAST to search for 6.5.1.2 or 6.5.1.6
Sequence Analysis Tools
PaperBLAST (search for papers about homologs of this protein)
Search CDD (the Conserved Domains Database, which includes COG and superfam)
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 L0GHZ1 at UniProt or InterPro
Protein Sequence (554 amino acids)
>Psest_0318 NAD-dependent DNA ligase (contains BRCT domain type II) (Pseudomonas stutzeri RCH2) MQRLIALSLCLFSSVCLASCPTWNAARAQQEIISLQLQLQHWDDAYHRRGLALVDDEIYD QSRARLHDWQRCFPSTLAAPEPLAGAGGPVPHPVMQTGLVKLADEQAVADWIARREDLWI QPKVDGVAVTLVYRDGLLQQAISRGDGRSGQDWTANARRLPAIPSLLPEPSEVILQGELY WRLEQHVQATLGGAGARAKVAGAMAGRPLTAEAAQQIGLFVWDWPNGPEAMTVRLERLAA MGFTHSQRFSLPLAGLEQARHWRVQWYRQPLPFASDGVVLRQGRRPPAERWQAEPHWAAA WKYPLRTAVTEVRAVDFRIGRTGRITPLLRLTPVSLDDRQIRTLSLGSLERWRTLDVRPG DQVAVALAGHSIPQLDSVIWRSAERAAVEAPDPSQFHAHSCWQPRPGCEQQFIARLVWLS GKQGLHLPGTGAGSWQALLDAGLLPDLLAWLELDAAALQQAPGIGKVRAAKLAASFALAR QRPLTQWLKALGLPGGISLAPETSWDVLAARTVSQWQGEPGIGPARADQLHAFFRTAELQ ALRHRLRAVGISGF