Protein Info for Pf1N1B4_3857 in Pseudomonas fluorescens FW300-N1B4

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

1 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 785 PF01653: DNA_ligase_aden" amino acids 4 to 324 (321 residues), 426.2 bits, see alignment E=2.4e-131 TIGR00575: DNA ligase, NAD-dependent" amino acids 11 to 610 (600 residues), 741.4 bits, see alignment E=4.5e-227 PF03120: DNA_ligase_OB" amino acids 329 to 405 (77 residues), 117.7 bits, see alignment E=4.9e-38 PF14520: HHH_5" amino acids 466 to 509 (44 residues), 17.8 bits, see alignment 1.2e-06 PF12826: HHH_2" amino acids 529 to 592 (64 residues), 70.8 bits, see alignment E=2.6e-23 amino acids 625 to 680 (56 residues), 28.7 bits, see alignment 3.7e-10 PF00533: BRCT" amino acids 705 to 776 (72 residues), 42.6 bits, see alignment E=1.8e-14

Best Hits

Swiss-Prot: 93% identical to DNLJ_PSEPF: DNA ligase (ligA) from Pseudomonas fluorescens (strain Pf0-1)

KEGG orthology group: K01972, DNA ligase (NAD+) [EC: 6.5.1.2] (inferred from 93% identity to pfo:Pfl01_1801)

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)

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 A0A166PLV1 at UniProt or InterPro

Protein Sequence (785 amino acids)

>Pf1N1B4_3857 DNA ligase (EC 6.5.1.2) (Pseudomonas fluorescens FW300-N1B4)
MTAAKNRILELRAELDQHNYRYHVLDEPSIPDAEYDRLFHELKALEAAHPELITSDSPTQ
RVGSAALSAFTQVRHEVPMLSLGNAFEETDMREFDRRVTEGLDLPVGDLFGAGAAVEYSC
EPKLDGLAVSLLYQDGVLVRGATRGDGTTGEDISVNVRTVRNIPLKLHGTGWPATLEVRG
EVFMSKAGFERLNATQLEVGGKTFANPRNAAAGSLRQLDSKITANRPLEFCCYGIGQISA
DIADTHIGNLQQLKAWGMPISHELKLANGIAECLDYYRDIGERRNALPYEIDGVVFKVNS
IASQRELGFRAREPRWAIAHKFPAMEELTELLDVEFQVGRTGAVTPVARLKPVKVAGVTV
ANATLHNMDEVARLGLMIGDTVIIRRAGDVIPQVVQVVAERRPEHARPVQIPEQCPVCGS
HVERTQLVKRSKGRETISEGAVYRCVGRLACGAQLKQAIIHFVSRRAMDIEGLGEKSVEQ
LVDEGLVSSPADLYALTFEQIVDLEGFAELSSKNLLGAIEDSKQPSLARFIYALGIPDVG
EETAKVLARSLGSLERVQQALPQVLTYLPDVGLEVAHEIHSFFEDAHNRQVIVDLLKHGM
QIQDQGELGAEFSASTTLGGFLDKLHIPSVGPGGAQKLADKFGSLEAVMSADWLDMRQAL
PEKQATSVREFFAGTENRQLAEAAEKQLRDFGMHWQSEKKVVEGLPLAGQTWVLTGSLEL
MSRDIAKDKLESLGAKVAGSVSAKTHCVVAGPGAGSKLAKANELGLKVLDEEAFVEFLKK
HGIDV