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UniProtKB - P15042 (DNLJ_ECOLI)
Protein
DNA ligase
Gene
ligA
Organism
Escherichia coli (strain K12)
Status
Functioni
DNA ligase that catalyzes the formation of phosphodiester linkages between 5'-phosphoryl and 3'-hydroxyl groups in double-stranded DNA using NAD as a coenzyme and as the energy source for the reaction. It is essential for DNA replication and repair of damaged DNA.
Catalytic activityi
- NAD(+) + (deoxyribonucleotide)(n)-3'-hydroxyl + 5'-phospho-(deoxyribonucleotide)(m) = (deoxyribonucleotide)(n+m) + AMP + beta-nicotinamide D-nucleotide.1 Publication EC:6.5.1.2
Cofactori
Mg2+1 Publication
Sites
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Binding sitei | 113 | NADUniRule annotation1 Publication | 1 | |
Active sitei | 115 | N6-AMP-lysine intermediateUniRule annotation1 Publication | 1 | |
Binding sitei | 136 | NADUniRule annotation1 Publication | 1 | |
Binding sitei | 173 | NADUniRule annotation | 1 | |
Binding sitei | 290 | NADUniRule annotation1 Publication | 1 | |
Binding sitei | 314 | NADUniRule annotation | 1 | |
Metal bindingi | 408 | ZincUniRule annotation1 Publication | 1 | |
Metal bindingi | 411 | ZincUniRule annotation1 Publication | 1 | |
Metal bindingi | 426 | ZincUniRule annotation1 Publication | 1 | |
Metal bindingi | 432 | ZincUniRule annotation1 Publication | 1 |
Regions
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Nucleotide bindingi | 32 – 36 | NADUniRule annotation | 5 | |
Nucleotide bindingi | 81 – 82 | NADUniRule annotation1 Publication | 2 |
GO - Molecular functioni
- DNA binding Source: EcoCyc
- DNA ligase (NAD+) activity Source: EcoliWiki
- metal ion binding Source: UniProtKB-KW
- NAD+ binding Source: EcoCyc
GO - Biological processi
- base-excision repair, DNA ligation Source: EcoCyc
- DNA ligation Source: EcoCyc
- DNA replication Source: UniProtKB-KW
Keywordsi
Molecular function | Ligase |
Biological process | DNA damage, DNA repair, DNA replication |
Ligand | Magnesium, Metal-binding, NAD, Zinc |
Enzyme and pathway databases
BioCyci | EcoCyc:EG10534-MONOMER |
BRENDAi | 6.5.1.2, 2026 |
Names & Taxonomyi
Protein namesi | Recommended name: DNA ligase (EC:6.5.1.2)Alternative name(s): Polydeoxyribonucleotide synthase [NAD(+)] |
Gene namesi | Name:ligA Synonyms:dnaL, lig, lop, pdeC Ordered Locus Names:b2411, JW2403 |
Organismi | Escherichia coli (strain K12) |
Taxonomic identifieri | 83333 [NCBI] |
Taxonomic lineagei | Bacteria › Proteobacteria › Gammaproteobacteria › Enterobacterales › Enterobacteriaceae › Escherichia › |
Proteomesi |
|
Pathology & Biotechi
Mutagenesis
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Mutagenesisi | 10 | E → A: No effect. 1 Publication | 1 | |
Mutagenesisi | 22 | Y → A or S: Reduces nick joining activity by 99.9%. 1 Publication | 1 | |
Mutagenesisi | 22 | Y → F: Reduces nick joining activity by 91%. 1 Publication | 1 | |
Mutagenesisi | 23 | H → A or Y: Reduces nick joining activity by 90%. 1 Publication | 1 | |
Mutagenesisi | 32 | D → A or E: Reduces nick joining activity by 99%. 1 Publication | 1 | |
Mutagenesisi | 32 | D → N: Reduces nick joining activity by 91%. 1 Publication | 1 | |
Mutagenesisi | 35 | Y → A: Reduces nick joining activity by 98%. 1 Publication | 1 | |
Mutagenesisi | 35 | Y → F: Reduces nick joining activity by 77%. 1 Publication | 1 | |
Mutagenesisi | 35 | Y → S: Reduces nick joining activity by 99.9%. 1 Publication | 1 | |
Mutagenesisi | 36 | D → A: Reduces nick joining activity by 99.8%. 1 Publication | 1 | |
Mutagenesisi | 36 | D → E: Reduces nick joining activity by 96%. 1 Publication | 1 | |
Mutagenesisi | 36 | D → N: Reduces nick joining activity by 88%. 1 Publication | 1 | |
Mutagenesisi | 115 | K → Q or R: Reduces nick joining activity by 99.9%. 1 Publication | 1 | |
Mutagenesisi | 117 | D → E: Reduces nick joining activity by 97%. 1 Publication | 1 | |
Mutagenesisi | 117 | D → N: Reduces nick joining activity by 99.9%. 1 Publication | 1 | |
Mutagenesisi | 118 | G → A: Reduces nick joining activity by 99.9%. 1 Publication | 1 | |
Mutagenesisi | 138 | D → A: Reduces nick joining activity by 63%. 1 Publication | 1 | |
Mutagenesisi | 143 | E → A: Reduces nick joining activity by 48%. 1 Publication | 1 | |
Mutagenesisi | 172 | G → A: Reduces nick joining activity by 64%. 1 Publication | 1 | |
Mutagenesisi | 173 | E → A, D or Q: Reduces nick joining activity by 99.9%. 1 Publication | 1 | |
Mutagenesisi | 198 | N → A: Reduces nick joining activity by 74%. 1 Publication | 1 | |
Mutagenesisi | 200 | R → A, K or Q: Reduces nick joining activity by 99.9%. 1 Publication | 1 | |
Mutagenesisi | 208 | R → A, K or Q: Reduces nick joining activity by 99%. 1 Publication | 1 | |
Mutagenesisi | 277 | R → A: Reduces nick joining activity by 99%. 1 Publication | 1 | |
Mutagenesisi | 285 | D → E: Reduces nick joining activity by 96%. 1 Publication | 1 | |
Mutagenesisi | 285 | D → N: Reduces nick joining activity by 99%. 1 Publication | 1 | |
Mutagenesisi | 286 | G → A: Reduces nick joining activity by 86%. 1 Publication | 1 | |
Mutagenesisi | 288 | V → A: Reduces nick joining activity by 25%. 1 Publication | 1 | |
Mutagenesisi | 290 | K → A: Reduces nick joining activity by 87%. 1 Publication | 1 | |
Mutagenesisi | 314 | K → Q: Reduces nick joining activity by 99%. 1 Publication | 1 | |
Mutagenesisi | 314 | K → R: Reduces nick joining activity by 95%. 1 Publication | 1 | |
Mutagenesisi | 333 | R → A or Q: Reduces nick joining activity by over 95%. Abolishes nick joining activity; when associated with A-334. 1 Publication | 1 | |
Mutagenesisi | 334 | T → A: Abolishes nick joining activity; when associated with A-333. 1 Publication | 1 | |
Mutagenesisi | 342 | R → A: Reduces nick joining activity by 80%. 1 Publication | 1 | |
Mutagenesisi | 379 | R → A or Q: Reduces nick joining activity by over 95%. 1 Publication | 1 | |
Mutagenesisi | 383 – 384 | VI → AA: Reduces nick joining activity by 95%. 1 Publication | 2 | |
Mutagenesisi | 446 – 447 | RR → AA: Reduces nick joining activity by 95%. 1 Publication | 2 | |
Mutagenesisi | 455 | G → A: Reduces nick joining activity by 50%. 1 Publication | 1 | |
Mutagenesisi | 455 | G → D or V: Reduces nick joining activity by 95%. 1 Publication | 1 | |
Mutagenesisi | 487 | R → A: Reduces nick joining activity by over 90%. 1 Publication | 1 | |
Mutagenesisi | 489 | G → D or V: Reduces nick joining activity by 95%. 1 Publication | 1 | |
Mutagenesisi | 521 | G → A: Reduces nick joining activity by 95%. 1 Publication | 1 | |
Mutagenesisi | 521 | G → D or V: Loss of nick joining activity. 1 Publication | 1 | |
Mutagenesisi | 553 | G → D or V: Reduces nick joining activity by 95%. 1 Publication | 1 | |
Mutagenesisi | 614 | R → A: Reduces nick joining activity by 85%. 1 Publication | 1 |
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000161745 | 1 – 671 | DNA ligaseAdd BLAST | 671 |
Proteomic databases
jPOSTi | P15042 |
PaxDbi | P15042 |
PRIDEi | P15042 |
Interactioni
Sites
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Sitei | 487 | Interaction with target DNA1 Publication | 1 | |
Sitei | 492 | Interaction with target DNA1 Publication | 1 |
Binary interactionsi
P15042
With | #Exp. | IntAct |
---|---|---|
leuS [P07813] | 3 | EBI-553496,EBI-553345 |
Protein-protein interaction databases
BioGRIDi | 4259672, 152 interactors 851225, 9 interactors |
DIPi | DIP-10098N |
IntActi | P15042, 20 interactors |
STRINGi | 511145.b2411 |
Structurei
Secondary structure
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details3D structure databases
SMRi | P15042 |
ModBasei | Search... |
PDBe-KBi | Search... |
Miscellaneous databases
EvolutionaryTracei | P15042 |
Family & Domainsi
Domains and Repeats
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Domaini | 593 – 671 | BRCTAdd BLAST | 79 |
Region
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Regioni | 330 – 334 | Interaction with target DNA1 Publication | 5 | |
Regioni | 453 – 458 | Interaction with target DNA1 Publication | 6 | |
Regioni | 519 – 524 | Interaction with target DNA1 Publication | 6 | |
Regioni | 551 – 556 | Interaction with target DNA1 Publication | 6 |
Sequence similaritiesi
Phylogenomic databases
eggNOGi | COG0272, Bacteria |
HOGENOMi | CLU_007764_2_1_6 |
InParanoidi | P15042 |
PhylomeDBi | P15042 |
Family and domain databases
CDDi | cd00114, LIGANc, 1 hit |
Gene3Di | 3.40.50.10190, 1 hit |
HAMAPi | MF_01588, DNA_ligase_A, 1 hit |
InterProi | View protein in InterPro IPR001357, BRCT_dom IPR036420, BRCT_dom_sf IPR041663, DisA/LigA_HHH IPR018239, DNA_ligase_AS IPR033136, DNA_ligase_CS IPR001679, DNAligase IPR013839, DNAligase_adenylation IPR013840, DNAligase_N IPR003583, Hlx-hairpin-Hlx_DNA-bd_motif IPR012340, NA-bd_OB-fold IPR004150, NAD_DNA_ligase_OB IPR010994, RuvA_2-like IPR004149, Znf_DNAligase_C4 |
Pfami | View protein in Pfam PF00533, BRCT, 1 hit PF01653, DNA_ligase_aden, 1 hit PF03120, DNA_ligase_OB, 1 hit PF03119, DNA_ligase_ZBD, 1 hit PF12826, HHH_2, 1 hit |
PIRSFi | PIRSF001604, LigA, 1 hit |
SMARTi | View protein in SMART SM00292, BRCT, 1 hit SM00278, HhH1, 4 hits SM00532, LIGANc, 1 hit |
SUPFAMi | SSF47781, SSF47781, 1 hit SSF50249, SSF50249, 1 hit SSF52113, SSF52113, 1 hit |
TIGRFAMsi | TIGR00575, dnlj, 1 hit |
PROSITEi | View protein in PROSITE PS50172, BRCT, 1 hit PS01055, DNA_LIGASE_N1, 1 hit PS01056, DNA_LIGASE_N2, 1 hit |
i Sequence
Sequence statusi: Complete.
P15042-1 [UniParc]FASTAAdd to basket
10 20 30 40 50
MESIEQQLTE LRTTLRHHEY LYHVMDAPEI PDAEYDRLMR ELRELETKHP
60 70 80 90 100
ELITPDSPTQ RVGAAPLAAF SQIRHEVPML SLDNVFDEES FLAFNKRVQD
110 120 130 140 150
RLKNNEKVTW CCELKLDGLA VSILYENGVL VSAATRGDGT TGEDITSNVR
160 170 180 190 200
TIRAIPLKLH GENIPARLEV RGEVFLPQAG FEKINEDARR TGGKVFANPR
210 220 230 240 250
NAAAGSLRQL DPRITAKRPL TFFCYGVGVL EGGELPDTHL GRLLQFKKWG
260 270 280 290 300
LPVSDRVTLC ESAEEVLAFY HKVEEDRPTL GFDIDGVVIK VNSLAQQEQL
310 320 330 340 350
GFVARAPRWA VAFKFPAQEQ MTFVRDVEFQ VGRTGAITPV ARLEPVHVAG
360 370 380 390 400
VLVSNATLHN ADEIERLGLR IGDKVVIRRA GDVIPQVVNV VLSERPEDTR
410 420 430 440 450
EVVFPTHCPV CGSDVERVEG EAVARCTGGL ICGAQRKESL KHFVSRRAMD
460 470 480 490 500
VDGMGDKIID QLVEKEYVHT PADLFKLTAG KLTGLERMGP KSAQNVVNAL
510 520 530 540 550
EKAKETTFAR FLYALGIREV GEATAAGLAA YFGTLEALEA ASIEELQKVP
560 570 580 590 600
DVGIVVASHV HNFFAEESNR NVISELLAEG VHWPAPIVIN AEEIDSPFAG
610 620 630 640 650
KTVVLTGSLS QMSRDDAKAR LVELGAKVAG SVSKKTDLVI AGEAAGSKLA
660 670
KAQELGIEVI DEAEMLRLLG S
Experimental Info
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Sequence conflicti | 69 | A → R in AAA24071 (PubMed:3018436).Curated | 1 |
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | M30255 Genomic DNA Translation: AAA24071.1 M24278 Genomic DNA Translation: AAA24070.1 U00096 Genomic DNA Translation: AAC75464.1 AP009048 Genomic DNA Translation: BAA16282.2 U74650 Genomic DNA Translation: AAB42062.1 |
PIRi | B65015, LQECC6 |
RefSeqi | NP_416906.1, NC_000913.3 WP_000443661.1, NZ_LN832404.1 |
Genome annotation databases
EnsemblBacteriai | AAC75464; AAC75464; b2411 BAA16282; BAA16282; BAA16282 |
GeneIDi | 946885 |
KEGGi | ecj:JW2403 eco:b2411 |
PATRICi | fig|1411691.4.peg.4320 |
Similar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | M30255 Genomic DNA Translation: AAA24071.1 M24278 Genomic DNA Translation: AAA24070.1 U00096 Genomic DNA Translation: AAC75464.1 AP009048 Genomic DNA Translation: BAA16282.2 U74650 Genomic DNA Translation: AAB42062.1 |
PIRi | B65015, LQECC6 |
RefSeqi | NP_416906.1, NC_000913.3 WP_000443661.1, NZ_LN832404.1 |
3D structure databases
Select the link destinations: PDBei RCSB PDBi PDBji Links Updated | PDB entry | Method | Resolution (Å) | Chain | Positions | PDBsum |
2OWO | X-ray | 2.30 | A | 1-671 | [»] | |
4GLX | X-ray | 1.90 | A | 1-586 | [»] | |
5TT5 | X-ray | 1.55 | A | 1-671 | [»] | |
SMRi | P15042 | |||||
ModBasei | Search... | |||||
PDBe-KBi | Search... |
Protein-protein interaction databases
BioGRIDi | 4259672, 152 interactors 851225, 9 interactors |
DIPi | DIP-10098N |
IntActi | P15042, 20 interactors |
STRINGi | 511145.b2411 |
Proteomic databases
jPOSTi | P15042 |
PaxDbi | P15042 |
PRIDEi | P15042 |
Genome annotation databases
EnsemblBacteriai | AAC75464; AAC75464; b2411 BAA16282; BAA16282; BAA16282 |
GeneIDi | 946885 |
KEGGi | ecj:JW2403 eco:b2411 |
PATRICi | fig|1411691.4.peg.4320 |
Organism-specific databases
EchoBASEi | EB0529 |
Phylogenomic databases
eggNOGi | COG0272, Bacteria |
HOGENOMi | CLU_007764_2_1_6 |
InParanoidi | P15042 |
PhylomeDBi | P15042 |
Enzyme and pathway databases
BioCyci | EcoCyc:EG10534-MONOMER |
BRENDAi | 6.5.1.2, 2026 |
Miscellaneous databases
EvolutionaryTracei | P15042 |
PROi | PR:P15042 |
Family and domain databases
CDDi | cd00114, LIGANc, 1 hit |
Gene3Di | 3.40.50.10190, 1 hit |
HAMAPi | MF_01588, DNA_ligase_A, 1 hit |
InterProi | View protein in InterPro IPR001357, BRCT_dom IPR036420, BRCT_dom_sf IPR041663, DisA/LigA_HHH IPR018239, DNA_ligase_AS IPR033136, DNA_ligase_CS IPR001679, DNAligase IPR013839, DNAligase_adenylation IPR013840, DNAligase_N IPR003583, Hlx-hairpin-Hlx_DNA-bd_motif IPR012340, NA-bd_OB-fold IPR004150, NAD_DNA_ligase_OB IPR010994, RuvA_2-like IPR004149, Znf_DNAligase_C4 |
Pfami | View protein in Pfam PF00533, BRCT, 1 hit PF01653, DNA_ligase_aden, 1 hit PF03120, DNA_ligase_OB, 1 hit PF03119, DNA_ligase_ZBD, 1 hit PF12826, HHH_2, 1 hit |
PIRSFi | PIRSF001604, LigA, 1 hit |
SMARTi | View protein in SMART SM00292, BRCT, 1 hit SM00278, HhH1, 4 hits SM00532, LIGANc, 1 hit |
SUPFAMi | SSF47781, SSF47781, 1 hit SSF50249, SSF50249, 1 hit SSF52113, SSF52113, 1 hit |
TIGRFAMsi | TIGR00575, dnlj, 1 hit |
PROSITEi | View protein in PROSITE PS50172, BRCT, 1 hit PS01055, DNA_LIGASE_N1, 1 hit PS01056, DNA_LIGASE_N2, 1 hit |
MobiDBi | Search... |
Entry informationi
Entry namei | DNLJ_ECOLI | |
Accessioni | P15042Primary (citable) accession number: P15042 Secondary accession number(s): P78197, P78198 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | April 1, 1990 |
Last sequence update: | November 1, 1997 | |
Last modified: | February 23, 2022 | |
This is version 192 of the entry and version 2 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Prokaryotic Protein Annotation Program |
Miscellaneousi
Keywords - Technical termi
3D-structure, Direct protein sequencing, Reference proteomeDocuments
- PDB cross-references
Index of Protein Data Bank (PDB) cross-references - SIMILARITY comments
Index of protein domains and families