Protein Info for Pf6N2E2_4650 in Pseudomonas fluorescens FW300-N2E2
Annotation: DNA ligase (EC 6.5.1.2)
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: 72% identical to LIGB_PSEPF: DNA ligase B (ligB) from Pseudomonas fluorescens (strain Pf0-1)
KEGG orthology group: K01972, DNA ligase (NAD+) [EC: 6.5.1.2] (inferred from 92% identity to pba:PSEBR_a5274)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 I (PNC VI cycle) (5/7 steps found)
- NAD salvage pathway III (to nicotinamide riboside) (2/3 steps found)
- NAD salvage (plants) (5/11 steps found)
Isozymes
Compare fitness of predicted isozymes for: 6.5.1.2
Use Curated BLAST to search for 6.5.1.2
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 A0A161H4K3 at UniProt or InterPro
Protein Sequence (557 amino acids)
>Pf6N2E2_4650 DNA ligase (EC 6.5.1.2) (Pseudomonas fluorescens FW300-N2E2) MPPFLYALACLVFIAIPALAAPCPDWPTERAQAEIAALQQQIDTWDDSYHRLGQSLVADE LYDQSRTELGQWRHCFNLAAPDDPLRSAGGKIPHPVVHTGLEKLKDADAVGAWLRGRKDV WAQPKVDGVAVTLAYRKGRLHQAISRGDGVQGHDWTPNARKIGAIPQRLRQPLDLVVQGE LYWRLLTHVQASSGSLNARGTVAGLMARTNMTAQEAADIGLFVWDWPEGPATLPERMAAL NELGFADTLHYNQPVQVLADAEHWRDHWYRTPLPFASDGIVLHQSRRPSADRWQARAPFW SAAWKYPYAQALAEVRKVHFKVGRTGRITPVLELERIRLDDRWIRRVSVSSLKRWKEMDI RPGDRVAISLAGLTIPRLDSVVLRSAERQDLNVPAQTDYHFLSCWQPTAGCESQFLARLG WLSGKQGLALPHVGPGTWEKLLAAGRLDGLLDWMTLDAAELANIAGFGEHSSTRLLASLH SARQRPFAQWLKALGLPPAGEARLEGPWQVLVERSTEQWQAEAGIGPGRAAQLSAFFRDP QVQALSDVLRTAGVDGF