Skip Header

You are using a version of Internet Explorer that may not display all features of this website. Please upgrade to a modern browser.
Contribute Send feedback
Read comments (?) or add your own

Q9HHC4 (DNLI_THEKO) Reviewed, UniProtKB/Swiss-Prot

Last modified February 19, 2014. Version 95. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (1) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
DNA ligase

EC=6.5.1.1
Alternative name(s):
Lig(Tk)
Polydeoxyribonucleotide synthase [ATP]
Gene names
Name:lig
Ordered Locus Names:TK2140
OrganismThermococcus kodakaraensis (strain ATCC BAA-918 / JCM 12380 / KOD1) (Pyrococcus kodakaraensis (strain KOD1)) [Reference proteome] [HAMAP]
Taxonomic identifier69014 [NCBI]
Taxonomic lineageArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaeThermococcus

Protein attributes

Sequence length559 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

DNA ligase that seals nicks in double-stranded DNA during DNA replication, DNA recombination and DNA repair. HAMAP-Rule MF_00407

Catalytic activity

ATP + (deoxyribonucleotide)(n) + (deoxyribonucleotide)(m) = AMP + diphosphate + (deoxyribonucleotide)(n+m). HAMAP-Rule MF_00407

Cofactor

Magnesium.

Binds 1 lipoyl cofactor covalently By similarity. HAMAP-Rule MF_00407

Subunit structure

Monomer.

Miscellaneous

Can also use NAD, but less efficiently than ATP.

Sequence similarities

Belongs to the ATP-dependent DNA ligase family.

Biophysicochemical properties

pH dependence:

Optimum pH is 8.0. HAMAP-Rule MF_00407

Temperature dependence:

Still active at 100 degrees Celsius. Thermostable.

Sequence caution

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

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

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 559559DNA ligase HAMAP-Rule MF_00407
PRO_0000059615

Sites

Active site2491N6-AMP-lysine intermediate By similarity
Binding site2471ATP By similarity
Binding site2541ATP By similarity
Binding site2691ATP By similarity
Binding site2991ATP By similarity
Binding site3391ATP By similarity
Binding site4141ATP By similarity
Binding site4201ATP By similarity

Sequences

Sequence LengthMass (Da)Tools
Q9HHC4 [UniParc].

Last modified June 20, 2001. Version 2.
Checksum: 91AB32542E03D20D

FASTA55963,749
        10         20         30         40         50         60 
MRYSELADLY RRLEKTTLKT LKTKFVADFL KKTPDELLEI VPYLILGKVF PDWDERELGV 

        70         80         90        100        110        120 
GEKLLIKAVS MATGVPEKEI EDSVRDTGDL GESVALAIKK KKQKSFFSQP LTIKRVYDTF 

       130        140        150        160        170        180 
VKIAEAQGEG SQDRKMKYLA NLFMDAEPEE GKYLARTVLG TMRTGVAEGI LRDAIAEAFR 

       190        200        210        220        230        240 
VKPELVERAY MLTSDFGYVA KIAKLEGNEG LSKVRIQIGK PIRPMLAQNA ASVKDALIEM 

       250        260        270        280        290        300 
GGEAAFEIKY DGARVQVHKD GDKVIVYSRR LENVTRSIPE VIEAIKAALK PEKAIVEGEL 

       310        320        330        340        350        360 
VAVGENGRPR PFQYVLRRFR RKYNIDEMIE KIPLELNLFD VMFVDGESLI ETKFIDRRNK 

       370        380        390        400        410        420 
LEEIVKESEK IKLAEQLITK KVEEAEAFYR RALELGHEGL MAKRLDSIYE PGNRGKKWLK 

       430        440        450        460        470        480 
IKPTMENLDL VIIGAEWGEG RRAHLLGSFL VAAYDPHSGE FLPVGKVGSG FTDEDLVEFT 

       490        500        510        520        530        540 
KMLKPYIVRQ EGKFVEIEPK FVIEVTYQEI QKSPKYKSGF ALRFPRYVAL REDKSPEEAD 

       550 
TIERVAELYE LQERFKAKK 

« Hide

References

« Hide 'large scale' references
[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.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AB042527 Genomic DNA. Translation: BAB15949.1. Different initiation.
AP006878 Genomic DNA. Translation: BAD86329.1. Different initiation.
RefSeqYP_184553.1. NC_006624.1.

3D structure databases

ProteinModelPortalQ9HHC4.
SMRQ9HHC4. Positions 1-558.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING69014.TK2140.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaBAD86329; BAD86329; TK2140.
GeneID3235455.
KEGGtko:TK2140.

Phylogenomic databases

eggNOGCOG1793.
HOGENOMHOG000036008.
KOK10747.
ProtClustDBPRK01109.

Enzyme and pathway databases

BioCycTKOD69014:GH72-2184-MONOMER.

Family and domain databases

Gene3D1.10.3260.10. 1 hit.
2.40.50.140. 1 hit.
HAMAPMF_00407. DNA_ligase.
InterProIPR022865. 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]
PfamPF04679. DNA_ligase_A_C. 1 hit.
PF01068. DNA_ligase_A_M. 1 hit.
PF04675. DNA_ligase_A_N. 1 hit.
[Graphical view]
SUPFAMSSF117018. SSF117018. 1 hit.
SSF50249. SSF50249. 1 hit.
TIGRFAMsTIGR00574. dnl1. 1 hit.
PROSITEPS00697. DNA_LIGASE_A1. 1 hit.
PS00333. DNA_LIGASE_A2. 1 hit.
PS50160. DNA_LIGASE_A3. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry nameDNLI_THEKO
AccessionPrimary (citable) accession number: Q9HHC4
Secondary accession number(s): Q5JHF2
Entry history
Integrated into UniProtKB/Swiss-Prot: June 20, 2001
Last sequence update: June 20, 2001
Last modified: February 19, 2014
This is version 95 of the entry and version 2 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families