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Protein

DNA ligase

Gene

lig

Organism
Candidatus Nitrosopumilus sp. AR2
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

Cofactori

Mg2+UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei250 – 2501ATPUniRule annotation
Active sitei252 – 2521N6-AMP-lysine intermediateUniRule annotation
Binding sitei257 – 2571ATPUniRule annotation
Binding sitei272 – 2721ATPUniRule annotation
Binding sitei302 – 3021ATPUniRule annotation
Binding sitei342 – 3421ATPUniRule annotation
Binding sitei417 – 4171ATPUniRule annotation
Binding sitei423 – 4231ATPUniRule 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, Nucleotide-binding

Names & Taxonomyi

Protein namesi
Recommended name:
DNA ligaseUniRule annotation (EC:6.5.1.1UniRule annotation)
Alternative name(s):
Polydeoxyribonucleotide synthase [ATP]UniRule annotation
Gene namesi
Name:ligUniRule annotation
ORF Names:NSED_06105Imported
OrganismiCandidatus Nitrosopumilus sp. AR2Imported
Taxonomic identifieri1229909 [NCBI]
Taxonomic lineageiArchaeaThaumarchaeotaNitrosopumilalesNitrosopumilaceaeNitrosopumilus
ProteomesiUP000006100: 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.
PS50160. DNA_LIGASE_A3. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

K0B9Y6-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MEYSILAESL NKMESTTKRL ELTQHLVELF EKTPHDVISK IVYLIQGKLR
60 70 80 90 100
PDFEGIELGV AEKLAIRAIS KSSGIPIKKI EDEYRKGGDL GHASTVILEQ
110 120 130 140 150
KTQTTFLVED ITVERVYDTL FKIAKLGGTR SQDMKMKYIS SLLNDATPLE
160 170 180 190 200
ASYILKILLG TLRLGIAENT VMDALAIAFS GNKENRKKLQ YAYNVSSDLG
210 220 230 240 250
KVAETIATKG LEGIEEFEII LFNPIRPMLA DRVKSEEEAI EKMGNEFAAE
260 270 280 290 300
YKLDGERVQL HIEGDKVELF SRSLERIESY YPDIIEKIPK NIQADNIILE
310 320 330 340 350
AEAVAINENT GEFLPFQELM HRRRKYKIEK AVTEYPITVN FFDILYCNGK
360 370 380 390 400
SCIDLSYKER REKLEKHVKE DEFAKYIPMK IVKNQSEIED FMENSINAGS
410 420 430 440 450
EGLMLKMLDK PYQAGSRGSH WLKLKREYRN ELGDSLDLVV IGGFFGKGRR
460 470 480 490 500
TGNYGTLLLA TYDEDEDTFP SICKVGTGFS DESLDQLYQI LHPKVSIKKN
510 520 530 540 550
PRIISDMEAD VWFEPELVIE VVASEITLSP IHKAAFNEIR KDAGLALRFP
560 570 580
KFTGKIRVEK AAEDASTNEE VITLYKGQKK VAHDKNLM
Length:588
Mass (Da):66,801
Last modified:November 28, 2012 - v1
Checksum:i9659BA7D4AB3A814
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP003843 Genomic DNA. Translation: AFS83023.1.
RefSeqiYP_006775965.1. NC_018656.1.

Genome annotation databases

EnsemblBacteriaiAFS83023; AFS83023; NSED_06105.
GeneIDi13697016.
KEGGinir:NSED_06105.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP003843 Genomic DNA. Translation: AFS83023.1.
RefSeqiYP_006775965.1. NC_018656.1.

3D structure databases

ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAFS83023; AFS83023; NSED_06105.
GeneIDi13697016.
KEGGinir:NSED_06105.

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.
PS50160. DNA_LIGASE_A3. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  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 [LARGE SCALE GENOMIC DNA].
    Strain: AR2Imported.

Entry informationi

Entry nameiK0B9Y6_9ARCH
AccessioniPrimary (citable) accession number: K0B9Y6
Entry historyi
Integrated into UniProtKB/TrEMBL: November 28, 2012
Last sequence update: November 28, 2012
Last modified: February 4, 2015
This is version 17 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.