Protein Info for Pf1N1B4_3180 in Pseudomonas fluorescens FW300-N1B4

Annotation: ATP-dependent DNA ligase (EC 6.5.1.1) LigC

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 50 100 150 200 250 300 350 400 450 500 562 PF04675: DNA_ligase_A_N" amino acids 2 to 161 (160 residues), 50 bits, see alignment E=6.4e-17 TIGR04120: DNA ligase, ATP-dependent, PP_1105 family" amino acids 2 to 561 (560 residues), 696.8 bits, see alignment E=1.2e-213 PF01068: DNA_ligase_A_M" amino acids 224 to 430 (207 residues), 79.1 bits, see alignment E=5.6e-26 PF04679: DNA_ligase_A_C" amino acids 451 to 546 (96 residues), 33.7 bits, see alignment E=6.2e-12

Best Hits

KEGG orthology group: K01971, DNA ligase (ATP) [EC: 6.5.1.1] (inferred from 84% identity to pfo:Pfl01_1211)

Predicted SEED Role

"ATP-dependent DNA ligase (EC 6.5.1.1) LigC" in subsystem DNA Repair Base Excision (EC 6.5.1.1)

Isozymes

Compare fitness of predicted isozymes for: 6.5.1.1

Use Curated BLAST to search for 6.5.1.1

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 A0A166P5P7 at UniProt or InterPro

Protein Sequence (562 amino acids)

>Pf1N1B4_3180 ATP-dependent DNA ligase (EC 6.5.1.1) LigC (Pseudomonas fluorescens FW300-N1B4)
MKAFADLYAELDATTSSNAKLAAMQSYFAQAAPEDAAWAVYFLSGGRPRQLVPVRMLREM
ATAFSGLSPWLFEESYQAVGDLAETISLVLPETPHTSTDGLAVWIEDKLLPLRNAPPLTL
AECLPALWAQLDRQSLMLCIKLITGSFRVGVSKLLVTRALAAMGGVDSKRVAQRLVGYTD
QSNRPSAASYLKLVAPESPNEHAQRGGQPYPFFLAHALSHPVEQFDALLGPVNQWQVEWK
WDGIRAQVVKRDGRLWIWSRGEELVSERFPELDSLVHDLPDGTVIDGEIVAWKAARPGTE
DAFDPKSTSSPAVQPFALLQQRISRRTLSKKILDEVPVVILAYDLLEWQGEDWRNQTQAT
RRVQLEQLIKACANPVLLSSPVLTGENWFDLARQREASRKLGVEGMMLKARDALYGVGRT
KDMGVWWKWKVDPFSVDAVLIYAQQGHGRRASLYTDYTFAVWDGPPSARERTLVPFAKAY
SGLTDEEIRQVDSIVRKTTVEKFGPVSSVKPTLVFELGFEGIALSKRHKSGIAVRFPRML
RWRQDKSVEEADNLATLQDLLA