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Protein

DNA ligase

Gene

ligA

Organism
Rickettsia typhi (strain ATCC VR-144 / Wilmington)
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 sitei121NADUniRule annotation1
Active sitei123N6-AMP-lysine intermediateUniRule annotation1
Binding sitei144NADUniRule annotation1
Binding sitei179NADUniRule annotation1
Binding sitei295NADUniRule annotation1
Binding sitei319NADUniRule annotation1
Metal bindingi413ZincUniRule annotation1
Metal bindingi416ZincUniRule annotation1
Metal bindingi431ZincUniRule annotation1
Metal bindingi437ZincUniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi40 – 44NADUniRule annotation5
Nucleotide bindingi89 – 90NADUniRule 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
Synonyms:lig
Ordered Locus Names:RT0706
OrganismiRickettsia typhi (strain ATCC VR-144 / Wilmington)
Taxonomic identifieri257363 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRickettsialesRickettsiaceaeRickettsieaeRickettsiatyphus group
Proteomesi
  • UP000000604 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002809481 – 693DNA ligaseAdd BLAST693

Interactioni

Protein-protein interaction databases

STRINGi257363.RT0706.

Structurei

3D structure databases

ProteinModelPortaliQ68W27.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini610 – 693BRCTUniRule annotationAdd BLAST84

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.
HOGENOMiHOG000218458.
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.
IPR018239. DNA_ligase_AS.
IPR001679. DNAligase.
IPR013839. DNAligase_adenylation.
IPR013840. DNAligase_N.
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.
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.
PS01055. DNA_LIGASE_N1. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q68W27-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MQNIDLISEK EAKKLLEELA DKIAMYNHAY YIEDNPLVSD SEYDQLFNLN
60 70 80 90 100
LKLENTFPHL VLSNSPSKKI GAKITNKFAK VIHQAPMLSL SNAFDEEDIR
110 120 130 140 150
DFLERIKNFL RINEFTPIFC EPKIDGLSFS AIYKHGLFIT GATRGDGYVG
160 170 180 190 200
EDITINIKTI KNFPHKIDNA PEFLEVRGEI YIEKQDFVNL NKEQEAQNRG
210 220 230 240 250
KFANPRNAAA GSIRQLDVAI TAQRPLKYFI YSGGVTEKNL ASTQEQLLAK
260 270 280 290 300
LKALSFSVNE ISKLASSEEE IFAFYEYLKT NRHNLPYEID GVVYKLNNFA
310 320 330 340 350
MQNRMGFIAR SPRFAIAHKF PAIIGQTKLL SITVQVGRTG MLTPVAELDP
360 370 380 390 400
LEIGGVVVSR ATLHNFQDIA RKDVRIKDYV FLQRAGDVIP QITGVDISKR
410 420 430 440 450
SNDTVKFDTP VFCPSCNSKL RYVSEDIIIR CDNGLNCPAQ NYERICHFVS
460 470 480 490 500
KNAMDIAGLG RKQVAFLIDK RLISNPLDIF FLKKKNETNL IRLENMDGWG
510 520 530 540 550
KKSVANLWQN IEKSQKISLQ RFIYALGIRH IGEQNAKLLA REFVSYNNFI
560 570 580 590 600
AQMELLSKND SDVYQKLNDL EGIGDKMLVD IIDFFYVKEN IQLIKKLGAV
610 620 630 640 650
LNIEDYKETR EQNILTGKIL VFTGSLKTIS RVEAKEIAEK LGAKVASSVS
660 670 680 690
SNTDLLIVGV NGGSKLKKAK ELNIKIIDEA EWLAFIKCLE KEV
Length:693
Mass (Da):78,483
Last modified:October 11, 2004 - v1
Checksum:i80BE9C9493DF658B
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE017197 Genomic DNA. Translation: AAU04165.1.
RefSeqiWP_011191142.1. NC_006142.1.

Genome annotation databases

EnsemblBacteriaiAAU04165; AAU04165; RT0706.
KEGGirty:RT0706.
PATRICi17910662. VBIRicTyp34752_0726.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE017197 Genomic DNA. Translation: AAU04165.1.
RefSeqiWP_011191142.1. NC_006142.1.

3D structure databases

ProteinModelPortaliQ68W27.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi257363.RT0706.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAU04165; AAU04165; RT0706.
KEGGirty:RT0706.
PATRICi17910662. VBIRicTyp34752_0726.

Phylogenomic databases

eggNOGiENOG4105C77. Bacteria.
COG0272. LUCA.
HOGENOMiHOG000218458.
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.
IPR018239. DNA_ligase_AS.
IPR001679. DNAligase.
IPR013839. DNAligase_adenylation.
IPR013840. DNAligase_N.
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.
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.
PS01055. DNA_LIGASE_N1. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiDNLJ_RICTY
AccessioniPrimary (citable) accession number: Q68W27
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 20, 2007
Last sequence update: October 11, 2004
Last modified: November 30, 2016
This is version 77 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

Documents

  1. Rickettsia typhi
    Rickettsia typhi (strain Wilmington): entries and gene names
  2. 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.