Protein Info for ECOLIN_RS13855 in Escherichia coli Nissle 1917

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 50 100 150 200 250 300 350 400 450 500 550 600 671 PF01653: DNA_ligase_aden" amino acids 3 to 318 (316 residues), 476 bits, see alignment E=2.2e-146 TIGR00575: DNA ligase, NAD-dependent" amino acids 11 to 665 (655 residues), 925.7 bits, see alignment E=7.7e-283 PF03120: DNA_ligase_OB" amino acids 322 to 398 (77 residues), 119.6 bits, see alignment E=1.7e-38 PF03119: DNA_ligase_ZBD" amino acids 407 to 434 (28 residues), 40.9 bits, see alignment (E = 6e-14) PF14520: HHH_5" amino acids 447 to 502 (56 residues), 28.6 bits, see alignment 6.7e-10 amino acids 511 to 554 (44 residues), 28.8 bits, see alignment 5.7e-10 PF12826: HHH_2" amino acids 510 to 573 (64 residues), 80.4 bits, see alignment E=3.4e-26 PF00633: HHH" amino acids 534 to 563 (30 residues), 24.5 bits, see alignment (E = 7.2e-09) PF00533: BRCT" amino acids 596 to 668 (73 residues), 62.2 bits, see alignment E=1.8e-20 PF12738: PTCB-BRCT" amino acids 606 to 660 (55 residues), 25.7 bits, see alignment 3.8e-09

Best Hits

Swiss-Prot: 100% identical to DNLJ_ECOL6: DNA ligase (ligA) from Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC)

KEGG orthology group: K01972, DNA ligase (NAD+) [EC: 6.5.1.2] (inferred from 100% identity to ecc:c2945)

MetaCyc: 100% 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)

>ECOLIN_RS13855 NAD-dependent DNA ligase LigA (Escherichia coli Nissle 1917)
MESIEQQLTELRTTLRHHEYLYHVMDAPEIPDAEYDRLMRELRELETKHPELITPDSPTQ
RVGAAPLAAFSQIRHEVPMLSLDNVFDEESFLAFNKRVQDRLKSNEKVTWCCELKLDGLA
VSILYENGVLVSAATRGDGTTGEDITSNVRTIRAIPLKLHGENIPARLEVRGEVFLPQAG
FEKINEDARRTGGKVFANPRNAAAGSLRQLDPRITAKRPLTFFCYGVGVLEGGELPDTHL
GRLLQFKKWGLPVSDRVTLCESAEEVLAFYHKVEEDRPTLGFDIDGVVIKVNSLAQQEQL
GFVARAPRWAVAFKFPAQEQMTFVRDVEFQVGRTGAITPVARLEPVHVAGVLVSNATLHN
ADEIERLGLRIGDKVVIRRAGDVIPQVVNVVLSERPEDTREVVFPTHCPVCGSDVERVEG
EAVARCTGGLICGAQRKESLKHFVSRRAMDVDGMGDKIIDQLVEKEYVHTPADLFKLTAG
KLTGLERMGPKSAQNVVNALEKAKETTFARFLYALGIREVGEATAAGLAAYFGTLEALEA
ASIEELQKVPDVGIVVASHVHNFFAEESNRNVISELLAEGVHWPEPIVINAEEIDSPFAG
KTVVLTGSLSQMSRDDAKARLVELGAKVAGSVSKKTDLVIAGEAAGSKLAKAQELGIEVI
DETEMLRLLGS