Protein Info for PS417_20865 in Pseudomonas simiae WCS417

Annotation: NAD-dependent DNA ligase LigA

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 321 (318 residues), 416.4 bits, see alignment E=2.2e-128 TIGR00575: DNA ligase, NAD-dependent" amino acids 11 to 605 (595 residues), 728.1 bits, see alignment E=5e-223 PF03120: DNA_ligase_OB" amino acids 326 to 402 (77 residues), 119.7 bits, see alignment E=1.2e-38 PF14520: HHH_5" amino acids 463 to 516 (54 residues), 18.1 bits, see alignment 9.4e-07 PF12826: HHH_2" amino acids 526 to 589 (64 residues), 70.7 bits, see alignment E=2.7e-23 PF00533: BRCT" amino acids 707 to 775 (69 residues), 40.6 bits, see alignment E=7.6e-14

Best Hits

Swiss-Prot: 97% identical to DNLJ_PSEFS: DNA ligase (ligA) from Pseudomonas fluorescens (strain SBW25)

KEGG orthology group: K01972, DNA ligase (NAD+) [EC: 6.5.1.2] (inferred from 97% identity to pfs:PFLU4588)

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 A0A1N7UAG7 at UniProt or InterPro

Protein Sequence (785 amino acids)

>PS417_20865 NAD-dependent DNA ligase LigA (Pseudomonas simiae WCS417)
MTAAHTRILELRAELDQHNYRYHVLDEPSIPDAEYDRLFHELKALEAEHPDLVTRDSPTQ
RVGSAALSAFTQVKHEIPMLSLGNAFDETTMLEFDRRVTEGLDLPAGDLFGGGAAVEYSC
EPKLDGLAVSLLYQDGELVRGATRGDGTTGEDISVNVRTVRNIPLKLHGSGWPANLEVRG
EVFMSKAGFERLNASQLEVGGKTFANPRNAAAGSLRQLDSKITASRPLEFCCYGVTTDIS
DTHIGNLQQLQKWGMPISRELKLAKGIQDCLEYYRDIGERRNSLPYEIDGVVFKVNSIAS
QRELGFRAREPRWAIAHKFPAMEELTELLDVEFQVGRTGAVTPVARLKPVKVAGVTVSNA
TLHNMDEVARLGVMIGDTVIIRRAGDVIPQVVSVVLERRPENARAVPIPQSCPVCGSHVE
RTQLVKRSKGKETVSEGAVYRCVGRLACGAQLKQAIIHFVSRRAMDIDGLGDKTIEQLVD
EKLIGSPADLYKLKYEHIIDLEGFADISSKKLITAIENSKSPTLARFIYALGIPDVGEET
AKVLARSLASLERVQKALPEVLTYLPDVGLEVAHEIHSFFEDSHNQDVIGALLSPEECGL
QLQDQGDLSAEFAASTTLGGLLDKLHVPSVGPGAAQKLADKFVTLEGVIKADWLDMRQAL
PEKQAKAVREFFDNADNAHRALAIEQQLKDFGMHWDSEKKVVEGLPEAGHTWVLTGSLEL
MSRDVAKEKLESLGAKVAGSVSAKTHCVVAGPGAGSKLTKASELGLKVLDEEAFVAFLAR
NNIKV