Protein Info for GFF2041 in Salmonella enterica subsp. enterica serovar Typhimurium str. MS1868

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 50 100 150 200 250 300 350 400 450 500 550 600 671 PF01653: DNA_ligase_aden" amino acids 4 to 318 (315 residues), 464.4 bits, see alignment E=7.5e-143 TIGR00575: DNA ligase, NAD-dependent" amino acids 11 to 665 (655 residues), 912.1 bits, see alignment E=9.5e-279 PF03120: DNA_ligase_OB" amino acids 322 to 398 (77 residues), 120.1 bits, see alignment E=1.2e-38 PF03119: DNA_ligase_ZBD" amino acids 407 to 434 (28 residues), 41.7 bits, see alignment (E = 3.3e-14) PF14520: HHH_5" amino acids 447 to 502 (56 residues), 26.7 bits, see alignment 2.6e-09 amino acids 511 to 554 (44 residues), 28 bits, see alignment 9.7e-10 PF12826: HHH_2" amino acids 510 to 573 (64 residues), 76.8 bits, see alignment E=4.5e-25 PF00533: BRCT" amino acids 596 to 667 (72 residues), 59.4 bits, see alignment E=1.4e-19 PF12738: PTCB-BRCT" amino acids 606 to 660 (55 residues), 26.3 bits, see alignment 2.5e-09

Best Hits

Swiss-Prot: 99% identical to DNLJ_SALA4: DNA ligase (ligA) from Salmonella agona (strain SL483)

KEGG orthology group: K01972, DNA ligase (NAD+) [EC: 6.5.1.2] (inferred from 94% identity to cko:CKO_00382)

MetaCyc: 93% identical to DNA ligase (Escherichia coli K-12 substr. MG1655)
DNA ligase (NAD(+)). [EC: 6.5.1.2, 6.5.1.6]

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 or 6.5.1.6

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

Find the best match in UniProt

Protein Sequence (671 amino acids)

>GFF2041 DNA ligase (EC 6.5.1.2) (Salmonella enterica subsp. enterica serovar Typhimurium str. MS1868)
MEPIEQQLTELRTTLRHHEYLYHVMDAPEIPDAEYDRLMRELRELEAQRPDLITPDSPTQ
RVGAAPLTAFNQIRHEVPMLSLDNVFDEESFLAFNKRVQDRLKSTENVIWCCELKLDGLA
VSILYENGVLVSAATRGDGTTGEDITSNVRTIRAIPLKLHGDNIPARLEVRGEVFLPQAG
FEKINEDARRTGGKVFANPRNAAAGSLRQLDPRITAKRPLTFFCYGVGILEGGELPDTHL
GRLLQFKAWGLPVSDRVTLCDSPQAVLDFYHNVEKDRPTLGFDIDGVVIKVNSLALQELL
GFVARAPRWAVAFKFPAQEQMTFVRDVEFQVGRTGAITPVARLEPVQVAGVLVSNATLHN
ADEIERLGLRIGDKVVIRRAGDVIPQVVNVVLSERPEETRPIVFPTHCPVCGSDVERVEG
EAVTRCTGGLICGAQRKESLKHFVSRRAMDVDGMGDKIIDQLVEREYVHTPADLFRLTAG
KLTGLDRMGPKSAQNVVNALEKSKTTTFARFLYALGIREVGEATAAGLAAYFGTLEALQA
ATIDELQKVPDVGIVVATHVFNFFAEESNRDVIGQLLAEGVHWPAPVVINVQEIDSPFAG
KTVVLTGSLSQMSRDDAKARLVALGAKVAGSVSKKTDLVIAGEAAGSKLAKAQELGITVI
DEAEMIRLLGA