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Protein

DNA ligase

Gene

ligA

Organism
Desulfobacterium autotrophicum (strain ATCC 43914 / DSM 3382 / HRM2)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

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.UniRule annotation

Catalytic activityi

NAD+ + (deoxyribonucleotide)(n) + (deoxyribonucleotide)(m) = AMP + beta-nicotinamide D-ribonucleotide + (deoxyribonucleotide)(n+m).UniRule annotation

Cofactori

Mg2+UniRule annotation, Mn2+UniRule annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei119NADUniRule annotation1
Active sitei121N6-AMP-lysine intermediateUniRule annotation1
Binding sitei142NADUniRule annotation1
Binding sitei182NADUniRule annotation1
Binding sitei302NADUniRule annotation1
Binding sitei326NADUniRule annotation1
Metal bindingi420ZincUniRule annotation1
Metal bindingi423ZincUniRule annotation1
Metal bindingi438ZincUniRule annotation1
Metal bindingi443ZincUniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi39 – 43NADUniRule annotation5
Nucleotide bindingi88 – 89NADUniRule annotation2

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Ligase

Keywords - Biological processi

DNA damage, DNA repair, DNA replication

Keywords - Ligandi

Magnesium, Manganese, Metal-binding, NAD, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
DNA ligaseUniRule annotation (EC:6.5.1.2UniRule annotation)
Alternative name(s):
Polydeoxyribonucleotide synthase [NAD(+)]UniRule annotation
Gene namesi
Name:ligAUniRule annotation
Ordered Locus Names:HRM2_28100
OrganismiDesulfobacterium autotrophicum (strain ATCC 43914 / DSM 3382 / HRM2)
Taxonomic identifieri177437 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaDeltaproteobacteriaDesulfobacteralesDesulfobacteraceaeDesulfobacterium
Proteomesi
  • UP000000442 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003803611 – 685DNA ligaseAdd BLAST685

Proteomic databases

PRIDEiC0QJ86.

Interactioni

Protein-protein interaction databases

STRINGi177437.HRM2_28100.

Structurei

3D structure databases

ProteinModelPortaliC0QJ86.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini606 – 685BRCTUniRule annotationAdd BLAST80

Sequence similaritiesi

Belongs to the NAD-dependent DNA ligase family. LigA subfamily.UniRule annotation
Contains 1 BRCT domain.UniRule annotation

Phylogenomic databases

eggNOGiENOG4105C77. Bacteria.
COG0272. LUCA.
HOGENOMiHOG000218459.
KOiK01972.
OMAiFTAKSPR.
OrthoDBiPOG091H024G.

Family and domain databases

CDDicd00027. BRCT. 1 hit.
Gene3Di3.40.50.10190. 1 hit.
HAMAPiMF_01588. DNA_ligase_A. 1 hit.
InterProiIPR001357. BRCT_dom.
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.
[Graphical view]
PfamiPF00533. BRCT. 1 hit.
PF01653. DNA_ligase_aden. 1 hit.
PF03120. DNA_ligase_OB. 1 hit.
PF03119. DNA_ligase_ZBD. 1 hit.
[Graphical view]
PIRSFiPIRSF001604. LigA. 1 hit.
SMARTiSM00292. BRCT. 1 hit.
SM00278. HhH1. 2 hits.
SM00532. LIGANc. 1 hit.
[Graphical view]
SUPFAMiSSF47781. SSF47781. 1 hit.
SSF50249. SSF50249. 1 hit.
SSF52113. SSF52113. 1 hit.
TIGRFAMsiTIGR00575. dnlj. 1 hit.
PROSITEiPS50172. BRCT. 1 hit.
PS01056. DNA_LIGASE_N2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

C0QJ86-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MIDPSSSFDR IKKEARLLRE QLHVHNINYH VKDDPVISDG EYDRMMQRLI
60 70 80 90 100
AIETQFPELS TPDSPTRRIG AKALTAFETA EHAIPMQSLD NAFSDQDVID
110 120 130 140 150
FHNRTAKILN TSDIRYTVEP KLDGVAVELR YEQGSLTLAL TRGDGTMGEV
160 170 180 190 200
ITDNARTIPS VPLKLAPAGN GTIPDVLEVR GEVIINSKDF EGLNKKRLAT
210 220 230 240 250
GEPLFANPRN AAAGSLRQLD SRVTAKRPLE IFVYGVGRAQ ELMANFDIGS
260 270 280 290 300
HSALLESLKR LGFRINPLIR SGLSLTEVLD RFKAFETMRQ DLDYEIDGMV
310 320 330 340 350
IKVDDIVFQE RLGTKARSPR WAIAYKFPAM EETTVINDII VQVGRTGTLT
360 370 380 390 400
PVAILEPVNI GGVMVARASL HNQDEIQNKD IRINDTVLVK RAGDVIPKVV
410 420 430 440 450
KPVTALRTGS ERVFVMPTHC PVCHSPVRRL DNEAAVKCIN ASCKAQLKQR
460 470 480 490 500
LKHFVSKGGF DMEGLGTKLI DQLVDRTLVG SFADLFTLDR ETLAAMDRMG
510 520 530 540 550
EKSATNIVQA IERSKRIPLK RFLFALGMAH TGESAAQLLS STFFTLEALL
560 570 580 590 600
KASAEALGAI EGVGPKTADS VVAFFANPDN QETIARMMEN GVVIENHTVV
610 620 630 640 650
ESAALDNATF FSEKRVVLTG TLGTLTRSEA KQRLEEQGAR VVSSVSKNTD
660 670 680
ILVAGEASGS KLVKARSLGV TIMDEQTFLE HLDRG
Length:685
Mass (Da):75,284
Last modified:May 5, 2009 - v1
Checksum:i3B0C000032505C3C
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001087 Genomic DNA. Translation: ACN15899.1.
RefSeqiWP_015904662.1. NC_012108.1.

Genome annotation databases

EnsemblBacteriaiACN15899; ACN15899; HRM2_28100.
KEGGidat:HRM2_28100.
PATRICi21685323. VBIDesAut25181_2920.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001087 Genomic DNA. Translation: ACN15899.1.
RefSeqiWP_015904662.1. NC_012108.1.

3D structure databases

ProteinModelPortaliC0QJ86.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi177437.HRM2_28100.

Proteomic databases

PRIDEiC0QJ86.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiACN15899; ACN15899; HRM2_28100.
KEGGidat:HRM2_28100.
PATRICi21685323. VBIDesAut25181_2920.

Phylogenomic databases

eggNOGiENOG4105C77. Bacteria.
COG0272. LUCA.
HOGENOMiHOG000218459.
KOiK01972.
OMAiFTAKSPR.
OrthoDBiPOG091H024G.

Family and domain databases

CDDicd00027. BRCT. 1 hit.
Gene3Di3.40.50.10190. 1 hit.
HAMAPiMF_01588. DNA_ligase_A. 1 hit.
InterProiIPR001357. BRCT_dom.
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.
[Graphical view]
PfamiPF00533. BRCT. 1 hit.
PF01653. DNA_ligase_aden. 1 hit.
PF03120. DNA_ligase_OB. 1 hit.
PF03119. DNA_ligase_ZBD. 1 hit.
[Graphical view]
PIRSFiPIRSF001604. LigA. 1 hit.
SMARTiSM00292. BRCT. 1 hit.
SM00278. HhH1. 2 hits.
SM00532. LIGANc. 1 hit.
[Graphical view]
SUPFAMiSSF47781. SSF47781. 1 hit.
SSF50249. SSF50249. 1 hit.
SSF52113. SSF52113. 1 hit.
TIGRFAMsiTIGR00575. dnlj. 1 hit.
PROSITEiPS50172. BRCT. 1 hit.
PS01056. DNA_LIGASE_N2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiDNLJ_DESAH
AccessioniPrimary (citable) accession number: C0QJ86
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 28, 2009
Last sequence update: May 5, 2009
Last modified: November 30, 2016
This is version 55 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.