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Q9HHC4

- DNLI_THEKO

UniProt

Q9HHC4 - DNLI_THEKO

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Protein
DNA ligase
Gene
lig, TK2140
Organism
Thermococcus kodakaraensis (strain ATCC BAA-918 / JCM 12380 / KOD1) (Pyrococcus kodakaraensis (strain KOD1))
Status
Reviewed - Annotation score: 5 out of 5 - Experimental evidence at protein leveli

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

Cofactori

Magnesium.
Binds 1 lipoyl cofactor covalently By similarity.UniRule annotation

pH dependencei

Optimum pH is 8.0.UniRule annotation

Temperature dependencei

Still active at 100 degrees Celsius. Thermostable.

Sites

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

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

Keywords - Molecular functioni

Ligase

Keywords - Biological processi

Cell cycle, Cell division, DNA damage, DNA recombination, DNA repair, DNA replication

Keywords - Ligandi

ATP-binding, Metal-binding, NAD, Nucleotide-binding

Enzyme and pathway databases

BioCyciTKOD69014:GH72-2184-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
DNA ligase (EC:6.5.1.1)
Alternative name(s):
Lig(Tk)
Polydeoxyribonucleotide synthase [ATP]
Gene namesi
Name:lig
Ordered Locus Names:TK2140
OrganismiThermococcus kodakaraensis (strain ATCC BAA-918 / JCM 12380 / KOD1) (Pyrococcus kodakaraensis (strain KOD1))
Taxonomic identifieri69014 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaeThermococcus
ProteomesiUP000000536: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 559559DNA ligaseUniRule annotation
PRO_0000059615Add
BLAST

Interactioni

Subunit structurei

Monomer.

Protein-protein interaction databases

STRINGi69014.TK2140.

Structurei

3D structure databases

ProteinModelPortaliQ9HHC4.
SMRiQ9HHC4. Positions 1-558.

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG1793.
HOGENOMiHOG000036008.
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.
PS50160. DNA_LIGASE_A3. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q9HHC4-1 [UniParc]FASTAAdd to Basket

« Hide

MRYSELADLY RRLEKTTLKT LKTKFVADFL KKTPDELLEI VPYLILGKVF    50
PDWDERELGV GEKLLIKAVS MATGVPEKEI EDSVRDTGDL GESVALAIKK 100
KKQKSFFSQP LTIKRVYDTF VKIAEAQGEG SQDRKMKYLA NLFMDAEPEE 150
GKYLARTVLG TMRTGVAEGI LRDAIAEAFR VKPELVERAY MLTSDFGYVA 200
KIAKLEGNEG LSKVRIQIGK PIRPMLAQNA ASVKDALIEM GGEAAFEIKY 250
DGARVQVHKD GDKVIVYSRR LENVTRSIPE VIEAIKAALK PEKAIVEGEL 300
VAVGENGRPR PFQYVLRRFR RKYNIDEMIE KIPLELNLFD VMFVDGESLI 350
ETKFIDRRNK LEEIVKESEK IKLAEQLITK KVEEAEAFYR RALELGHEGL 400
MAKRLDSIYE PGNRGKKWLK IKPTMENLDL VIIGAEWGEG RRAHLLGSFL 450
VAAYDPHSGE FLPVGKVGSG FTDEDLVEFT KMLKPYIVRQ EGKFVEIEPK 500
FVIEVTYQEI QKSPKYKSGF ALRFPRYVAL REDKSPEEAD TIERVAELYE 550
LQERFKAKK 559
Length:559
Mass (Da):63,749
Last modified:June 20, 2001 - v2
Checksum:i91AB32542E03D20D
GO

Sequence cautioni

The sequence BAB15949.1 differs from that shown. Reason: Erroneous initiation.
The sequence BAD86329.1 differs from that shown. Reason: Erroneous initiation.

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AB042527 Genomic DNA. Translation: BAB15949.1. Different initiation.
AP006878 Genomic DNA. Translation: BAD86329.1. Different initiation.
RefSeqiYP_184553.1. NC_006624.1.

Genome annotation databases

EnsemblBacteriaiBAD86329; BAD86329; TK2140.
GeneIDi3235455.
KEGGitko:TK2140.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AB042527 Genomic DNA. Translation: BAB15949.1 . Different initiation.
AP006878 Genomic DNA. Translation: BAD86329.1 . Different initiation.
RefSeqi YP_184553.1. NC_006624.1.

3D structure databases

ProteinModelPortali Q9HHC4.
SMRi Q9HHC4. Positions 1-558.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 69014.TK2140.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai BAD86329 ; BAD86329 ; TK2140 .
GeneIDi 3235455.
KEGGi tko:TK2140.

Phylogenomic databases

eggNOGi COG1793.
HOGENOMi HOG000036008.
KOi K10747.

Enzyme and pathway databases

BioCyci TKOD69014:GH72-2184-MONOMER.

Family and domain databases

Gene3Di 1.10.3260.10. 1 hit.
2.40.50.140. 1 hit.
HAMAPi MF_00407. DNA_ligase.
InterProi IPR022865. 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 ]
Pfami PF04679. DNA_ligase_A_C. 1 hit.
PF01068. DNA_ligase_A_M. 1 hit.
PF04675. DNA_ligase_A_N. 1 hit.
[Graphical view ]
SUPFAMi SSF117018. SSF117018. 1 hit.
SSF50249. SSF50249. 1 hit.
TIGRFAMsi TIGR00574. dnl1. 1 hit.
PROSITEi PS00697. DNA_LIGASE_A1. 1 hit.
PS00333. DNA_LIGASE_A2. 1 hit.
PS50160. DNA_LIGASE_A3. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "A DNA ligase from a hyperthermophilic archaeon with unique cofactor specificity."
    Nakatani M., Ezaki S., Atomi H., Imanaka T.
    J. Bacteriol. 182:6424-6433(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], PARTIAL PROTEIN SEQUENCE.
    Strain: ATCC BAA-918 / JCM 12380 / KOD1.
  2. "Complete genome sequence of the hyperthermophilic archaeon Thermococcus kodakaraensis KOD1 and comparison with Pyrococcus genomes."
    Fukui T., Atomi H., Kanai T., Matsumi R., Fujiwara S., Imanaka T.
    Genome Res. 15:352-363(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC BAA-918 / JCM 12380 / KOD1.

Entry informationi

Entry nameiDNLI_THEKO
AccessioniPrimary (citable) accession number: Q9HHC4
Secondary accession number(s): Q5JHF2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 20, 2001
Last sequence update: June 20, 2001
Last modified: May 14, 2014
This is version 96 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Miscellaneous

Can also use NAD, but less efficiently than ATP.

Keywords - Technical termi

Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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