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K0B9Y6 (K0B9Y6_9ARCH) Unreviewed, UniProtKB/TrEMBL

Last modified April 3, 2013. Version 5. Feed History...

Clusters with 100%, 90%, 50% identity | Third-party data text xml rdf/xml gff fasta
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Names and origin

Protein namesRecommended name:
DNA ligase RuleBase RU000617 HAMAP-Rule MF_00407
EC=6.5.1.1 RuleBase RU000617 HAMAP-Rule MF_00407
Alternative name(s):
Polydeoxyribonucleotide synthase [ATP] HAMAP-Rule MF_00407
Gene names
Name:lig HAMAP-Rule MF_00407
ORF Names:NSED_06105 EMBL AFS83023.1
OrganismCandidatus Nitrosopumilus sp. AR2 EMBL AFS83023.1
Taxonomic identifier1229909 [NCBI]
Taxonomic lineageArchaea › Thaumarchaeota › Nitrosopumilales › Nitrosopumilaceae › Nitrosopumilus

Protein attributes

Sequence length588 AA.
Sequence statusComplete.
Protein existenceInferred from homology

General annotation (Comments)

Function

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

Catalytic activity

ATP + (deoxyribonucleotide)(n) + (deoxyribonucleotide)(m) = AMP + diphosphate + (deoxyribonucleotide)(n+m). RuleBase RU000617 HAMAP-Rule MF_00407

Cofactor

Divalent metal cations By similarity. HAMAP-Rule MF_00407

Sequence similarities

Belongs to the ATP-dependent DNA ligase family. RuleBase RU004196 HAMAP-Rule MF_00407

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Sites

Active site2521N6-AMP-lysine intermediate By similarity HAMAP-Rule MF_00407
Binding site2501ATP By similarity HAMAP-Rule MF_00407
Binding site2571ATP By similarity HAMAP-Rule MF_00407
Binding site2721ATP By similarity HAMAP-Rule MF_00407
Binding site3021ATP By similarity HAMAP-Rule MF_00407
Binding site3421ATP By similarity HAMAP-Rule MF_00407
Binding site4171ATP By similarity HAMAP-Rule MF_00407
Binding site4231ATP By similarity HAMAP-Rule MF_00407

Sequences

Sequence LengthMass (Da)Tools
K0B9Y6 [UniParc].

Last modified November 28, 2012. Version 1.
Checksum: 9659BA7D4AB3A814

FASTA58866,801
        10         20         30         40         50         60 
MEYSILAESL NKMESTTKRL ELTQHLVELF EKTPHDVISK IVYLIQGKLR PDFEGIELGV 

        70         80         90        100        110        120 
AEKLAIRAIS KSSGIPIKKI EDEYRKGGDL GHASTVILEQ KTQTTFLVED ITVERVYDTL 

       130        140        150        160        170        180 
FKIAKLGGTR SQDMKMKYIS SLLNDATPLE ASYILKILLG TLRLGIAENT VMDALAIAFS 

       190        200        210        220        230        240 
GNKENRKKLQ YAYNVSSDLG KVAETIATKG LEGIEEFEII LFNPIRPMLA DRVKSEEEAI 

       250        260        270        280        290        300 
EKMGNEFAAE YKLDGERVQL HIEGDKVELF SRSLERIESY YPDIIEKIPK NIQADNIILE 

       310        320        330        340        350        360 
AEAVAINENT GEFLPFQELM HRRRKYKIEK AVTEYPITVN FFDILYCNGK SCIDLSYKER 

       370        380        390        400        410        420 
REKLEKHVKE DEFAKYIPMK IVKNQSEIED FMENSINAGS EGLMLKMLDK PYQAGSRGSH 

       430        440        450        460        470        480 
WLKLKREYRN ELGDSLDLVV IGGFFGKGRR TGNYGTLLLA TYDEDEDTFP SICKVGTGFS 

       490        500        510        520        530        540 
DESLDQLYQI LHPKVSIKKN PRIISDMEAD VWFEPELVIE VVASEITLSP IHKAAFNEIR 

       550        560        570        580 
KDAGLALRFP KFTGKIRVEK AAEDASTNEE VITLYKGQKK VAHDKNLM

« Hide

References

[1]"Draft Genome Sequence of an Ammonia-Oxidizing Archaeon, "Candidatus Nitrosopumilus sediminis" AR2, from Svalbard in the Arctic Circle."
Park S.J., Kim J.G., Jung M.Y., Kim S.J., Cha I.T., Ghai R., Martin-Cuadrado A.B., Rodriguez-Valera F., Rhee S.K.
J. Bacteriol. 194:6948-6949(2012) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE.
Strain: AR2 EMBL AFS83023.1.
[2]Salehi R., Fisher C.A., Bignell P.A., Old J.M.
Submitted (SEP-2012) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE.
Strain: AR2 EMBL AFS83023.1.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ		CP003843 Genomic DNA. Translation: AFS83023.1.
RefSeqYP_006775965.1. NC_018656.1.

3D structure databases

ModBaseSearch...

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

GeneID13697016.
KEGGnir:NSED_06105.

Phylogenomic databases

KOK10747.

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]
SUPFAMSSF50249. Nucleic_acid_OB. 1 hit.
SSF117018. SSF117018. 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 nameK0B9Y6_9ARCH
AccessionPrimary (citable) accession number: K0B9Y6
Entry history
Integrated into UniProtKB/TrEMBL: November 28, 2012
Last sequence update: November 28, 2012
Last modified: April 3, 2013
This is version 5 of the entry and version 1 of the sequence. [Complete history]
Entry statusUnreviewed (UniProtKB/TrEMBL)
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info