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Protein

DNA ligase

Gene

lig

Organism
Thermococcus sp. CL1
Status
Unreviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

DNA ligase that seals nicks in double-stranded DNA during DNA replication, DNA recombination and DNA repair.UniRule annotation

Catalytic activityi

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

Cofactori

Mg2+UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei247 – 2471ATPUniRule annotation
Active sitei249 – 2491N6-AMP-lysine intermediateUniRule annotation
Binding sitei254 – 2541ATPUniRule annotation
Binding sitei269 – 2691ATPUniRule annotation
Binding sitei299 – 2991ATPUniRule annotation
Binding sitei339 – 3391ATPUniRule annotation
Binding sitei414 – 4141ATPUniRule annotation
Binding sitei420 – 4201ATPUniRule annotation

GO - Molecular functioni

  1. ATP binding Source: UniProtKB-HAMAP
  2. DNA binding Source: InterPro
  3. DNA ligase (ATP) activity Source: UniProtKB-HAMAP
  4. metal ion binding Source: UniProtKB-KW

GO - Biological processi

  1. cell cycle Source: UniProtKB-KW
  2. cell division Source: UniProtKB-KW
  3. DNA biosynthetic process Source: InterPro
  4. DNA ligation involved in DNA repair Source: InterPro
  5. DNA recombination Source: UniProtKB-HAMAP
  6. DNA replication Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Molecular functioni

LigaseUniRule annotation

Keywords - Biological processi

Cell cycle, Cell divisionUniRule annotation, DNA damage, DNA recombinationUniRule annotation, DNA repairUniRule annotation, DNA replicationUniRule annotation

Keywords - Ligandi

ATP-bindingUniRule annotation, MagnesiumUniRule annotation, Metal-bindingUniRule annotation, NADUniRule annotation, Nucleotide-binding

Enzyme and pathway databases

BioCyciTSP163003:GLMB-1228-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
DNA ligaseUniRule annotation (EC:6.5.1.1UniRule annotation, EC:6.5.1.6UniRule annotation)
Alternative name(s):
Polydeoxyribonucleotide synthase [ATP/NAD(+)]UniRule annotation
Gene namesi
Name:ligUniRule annotation
ORF Names:CL1_1197Imported
OrganismiThermococcus sp. CL1Imported
Taxonomic identifieri163003 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaeThermococcus
ProteomesiUP000006064 Componenti: Chromosome

Family & Domainsi

Sequence similaritiesi

Belongs to the ATP-dependent DNA ligase family.UniRule annotation

Phylogenomic databases

KOiK10747.

Family and domain databases

Gene3Di1.10.3260.10. 1 hit.
2.40.50.140. 1 hit.
HAMAPiMF_00407. DNA_ligase.
InterProiIPR022865. DNA_ligae_ATP-dep_bac/arc.
IPR000977. DNA_ligase_ATP-dep.
IPR012309. DNA_ligase_ATP-dep_C.
IPR012310. DNA_ligase_ATP-dep_cent.
IPR016059. DNA_ligase_ATP-dep_CS.
IPR012308. DNA_ligase_ATP-dep_N.
IPR012340. NA-bd_OB-fold.
[Graphical view]
PfamiPF04679. DNA_ligase_A_C. 1 hit.
PF01068. DNA_ligase_A_M. 1 hit.
PF04675. DNA_ligase_A_N. 1 hit.
[Graphical view]
SUPFAMiSSF117018. SSF117018. 1 hit.
SSF50249. SSF50249. 1 hit.
TIGRFAMsiTIGR00574. dnl1. 1 hit.
PROSITEiPS00697. DNA_LIGASE_A1. 1 hit.
PS00333. DNA_LIGASE_A2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

I3ZUL6-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKYSELTELY RRLEKTTLKT LKTRFVAEFL RKTPDDVLEV VPYLILGKVF
60 70 80 90 100
PDWDERELGV GEKLLIKSVS IATGVSEREI ENSVKDTGDL GESVALALKK
110 120 130 140 150
KKQRSFFSQP LTIKRVYDTF VKIAEAQGEG SQDRKMKYLA NLFMDAKPEE
160 170 180 190 200
GKYLARTVLG TMRTGVAEGI LRDAIAEAFK VKPELVERAY MLTSDFGHVA
210 220 230 240 250
KIAKLEGNEG LSRVRIQVGK PIRPMLAQNA ASVKEALAEM GGKAAFEIKY
260 270 280 290 300
DGARVQVHKD GDRVVIYSRR LENVTRSIPE IVRAVRESLK AEKAIVEGEL
310 320 330 340 350
VAVGEGGKPR PFQYVLRRFR RKYNIEEMIE KIPLELNLFD VLYVDGEGLI
360 370 380 390 400
DTPFSERREK LEEIISPGER IRLAEQLVTK SAEEAEAFYK KALELGHEGL
410 420 430 440 450
MAKRLDSVYE PGNRGKKWLK IKPTMEDLDL VIIGAEWGEG RRAHLLGSFL
460 470 480 490 500
VAAFDPHSGE FVPVGKVGSG FTDEDLAEFT KMLKPLIVRE EGKYVEIEPK
510 520 530 540 550
VVIQVTYQEI QRSPKYESGF ALRFPRYVAL REDKSPEEAD TIERIAQLYE

FQERFKAKR
Length:559
Mass (Da):63,488
Last modified:September 5, 2012 - v1
Checksum:i934B59576B22B39B
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP003651 Genomic DNA. Translation: AFL95400.1.
RefSeqiWP_014789033.1. NC_018015.1.
YP_006425194.1. NC_018015.1.

Genome annotation databases

EnsemblBacteriaiAFL95400; AFL95400; CL1_1197.
GeneIDi13037587.
KEGGithm:CL1_1197.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP003651 Genomic DNA. Translation: AFL95400.1.
RefSeqiWP_014789033.1. NC_018015.1.
YP_006425194.1. NC_018015.1.

3D structure databases

ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAFL95400; AFL95400; CL1_1197.
GeneIDi13037587.
KEGGithm:CL1_1197.

Phylogenomic databases

KOiK10747.

Enzyme and pathway databases

BioCyciTSP163003:GLMB-1228-MONOMER.

Family and domain databases

Gene3Di1.10.3260.10. 1 hit.
2.40.50.140. 1 hit.
HAMAPiMF_00407. DNA_ligase.
InterProiIPR022865. DNA_ligae_ATP-dep_bac/arc.
IPR000977. DNA_ligase_ATP-dep.
IPR012309. DNA_ligase_ATP-dep_C.
IPR012310. DNA_ligase_ATP-dep_cent.
IPR016059. DNA_ligase_ATP-dep_CS.
IPR012308. DNA_ligase_ATP-dep_N.
IPR012340. NA-bd_OB-fold.
[Graphical view]
PfamiPF04679. DNA_ligase_A_C. 1 hit.
PF01068. DNA_ligase_A_M. 1 hit.
PF04675. DNA_ligase_A_N. 1 hit.
[Graphical view]
SUPFAMiSSF117018. SSF117018. 1 hit.
SSF50249. SSF50249. 1 hit.
TIGRFAMsiTIGR00574. dnl1. 1 hit.
PROSITEiPS00697. DNA_LIGASE_A1. 1 hit.
PS00333. DNA_LIGASE_A2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "Complete Genome Sequence of the Hyperthermophilic Archaeon Thermococcus sp. Strain CL1, Isolated from a Paralvinella sp. Polychaete Worm Collected from a Hydrothermal Vent."
    Jung J.H., Holden J.F., Seo D.H., Park K.H., Shin H., Ryu S., Lee J.H., Park C.S.
    J. Bacteriol. 194:4769-4770(2012) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].

Entry informationi

Entry nameiI3ZUL6_9EURY
AccessioniPrimary (citable) accession number: I3ZUL6
Entry historyi
Integrated into UniProtKB/TrEMBL: September 5, 2012
Last sequence update: September 5, 2012
Last modified: February 4, 2015
This is version 19 of the entry and version 1 of the sequence. [Complete history]
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Keywords - Technical termi

Complete proteomeImported

External Data

Dasty 3

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 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.