Protein Info for PS417_26460 in Pseudomonas simiae WCS417

Annotation: NAD-dependent DNA ligase LigB

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 50 100 150 200 250 300 350 400 450 500 554 signal peptide" amino acids 1 to 20 (20 residues), see Phobius details PF01653: DNA_ligase_aden" amino acids 115 to 305 (191 residues), 67.9 bits, see alignment E=1.1e-22 PF03120: DNA_ligase_OB" amino acids 312 to 383 (72 residues), 77 bits, see alignment E=8.1e-26

Best Hits

Swiss-Prot: 83% identical to LIGB_PSEFS: DNA ligase B (ligB) from Pseudomonas fluorescens (strain SBW25)

KEGG orthology group: K01972, DNA ligase (NAD+) [EC: 6.5.1.2] (inferred from 83% identity to pfs:PFLU5711)

Predicted SEED Role

"DNA ligase (EC 6.5.1.2)" in subsystem DNA Repair Base Excision (EC 6.5.1.2)

MetaCyc Pathways

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)

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

See A0A1N7UT40 at UniProt or InterPro

Protein Sequence (554 amino acids)

>PS417_26460 NAD-dependent DNA ligase LigB (Pseudomonas simiae WCS417)
MMPLLLALLLSILPFRGWAEECPDTARAQVNTLTEQIRLWDDSYHRLNQSPVSDELYDQA
HQRLTHWRRCFPESPPKPDNPLASSRGTLRHPIAHTGLEKLLDEQAVGAWLSTRQDVWIQ
PKVDGVAVTLVYRQGRLRQVISRGDGLMGHDWSASARRIPGIVQQLPEPIDLVLQGELYW
HLDDHVQSANGGLNARSKVAGLMNRLELSDADAAGIGLFVWAWPEGPGSFTERLAALARW
GFTDSRRYSQPIRDIAEATHWRAYWYNHPLPFASDGVVLHQAQRPPARRWKASEPYWAVA
WKYPAAKALALVRNVRFKIGRTGRITPMLELEPVQLDDRQISRVSAGSLKRWQTLDIRPG
DQVSISLAGQVIPRLDEVILRNAHRADLAAPDPRDFHALSCWQLDPGCEEQLLARLTWLS
GNQGLALPHIGRETWNVLIQAGLIASFLDWLTLDVAELANIEGFGDSSRTRVLESLNSAR
QRSFAQWLKALGVPPAARNNLEGDWQTLVARDTQAWLAIDGIGPGRAAQLSAFFRDPQVQ
ALADTLRVAGIDGF