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I3RFS7

- I3RFS7_9EURY

UniProt

I3RFS7 - I3RFS7_9EURY

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Protein
DNA ligase
Gene
lig, Py04_1516
Organism
Pyrococcus sp. ST04
Status
Unreviewed - 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 By similarity.UniRule annotation

Catalytic activityi

ATP + (deoxyribonucleotide)(n) + (deoxyribonucleotide)(m) = AMP + diphosphate + (deoxyribonucleotide)(n+m).UniRule annotation

Cofactori

Divalent metal cations By similarity.UniRule annotation

Sites

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

LigaseUniRule annotationImported

Keywords - Biological processi

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

Keywords - Ligandi

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

Enzyme and pathway databases

BioCyciPSP1183377:GLJ2-1559-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
DNA ligaseUniRule annotation (EC:6.5.1.1UniRule annotation)
Alternative name(s):
Polydeoxyribonucleotide synthase [ATP]
Gene namesi
Name:ligUniRule annotation
ORF Names:Py04_1516Imported
OrganismiPyrococcus sp. ST04Imported
Taxonomic identifieri1183377 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaePyrococcus
ProteomesiUP000006467: 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.

I3RFS7-1 [UniParc]FASTAAdd to Basket

« Hide

MRYLELAQLY QKLEKTTMKL IKTRLVADFL KKVPDDHLEF IPYLILGDVF    50
PEWDERELGV GEKLLIKAVA MATGIDANEI ENSVKDTGDL GESIALAVKK 100
RKQKSFFSQP LTIKRVYQTL VKVAETTGEG SQEKKMKYLA NLFMDAEPIE 150
AKYIARTVLG TMRTGVAEGL LRDAIALAFH VKVELVERAY MLTSDFGFVA 200
KVAKLEGNEG LAKVQVQIGK PIKPMLAQQA ANIKEALLEM GGEAEFEIKY 250
DGARVQVHKD GDKIIVYSRR LENVTRAIPE IVEALKQSVK PNKAIVEGEL 300
VAIGEDGRPL PFQYVLRRFR RKHNIQEMMK KIPLELNLFD VLYVDGESMI 350
DVKFIDRRKK LEEIIEPNGK IKVAENLITK KVEEAEAFYK KALEMGHEGL 400
MAKRLDATYE PGNRGKKWLK IKPTMENLDL VIIGAEWGEG RRAHLLGSFI 450
LGAYDPETGE FLEVGKVGSG FTDEDLVEFT KMLKPLIIKE EGKRVWIEPK 500
IVIEVTYQEI QKSPKYKSGF ALRFPRYVAL RDDKGPEDAD TIERIAQLYE 550
LQERMKGKV 559
Length:559
Mass (Da):63,465
Last modified:September 5, 2012 - v1
Checksum:i40405D1D414E2625
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP003534 Genomic DNA. Translation: AFK23087.1.
RefSeqiWP_014734609.1. NC_017946.1.
YP_006355162.1. NC_017946.1.

Genome annotation databases

EnsemblBacteriaiAFK23087; AFK23087; Py04_1516.
GeneIDi13022782.
KEGGipys:Py04_1516.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP003534 Genomic DNA. Translation: AFK23087.1 .
RefSeqi WP_014734609.1. NC_017946.1.
YP_006355162.1. NC_017946.1.

3D structure databases

ModBasei Search...
MobiDBi Search...

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AFK23087 ; AFK23087 ; Py04_1516 .
GeneIDi 13022782.
KEGGi pys:Py04_1516.

Phylogenomic databases

KOi K10747.

Enzyme and pathway databases

BioCyci PSP1183377:GLJ2-1559-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

  1. "Complete Genome Sequence of the Hyperthermophilic Archaeon Pyrococcus sp. Strain ST04, Isolated from a Deep-Sea Hydrothermal Sulfide Chimney on the Juan de Fuca Ridge."
    Jung J.H., Lee J.H., Holden J.F., Seo D.H., Shin H., Kim H.Y., Kim W., Ryu S., Park C.S.
    J. Bacteriol. 194:4434-4435(2012) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ST04Imported.

Entry informationi

Entry nameiI3RFS7_9EURY
AccessioniPrimary (citable) accession number: I3RFS7
Entry historyi
Integrated into UniProtKB/TrEMBL: September 5, 2012
Last sequence update: September 5, 2012
Last modified: September 3, 2014
This is version 14 of the entry and version 1 of the sequence. [Complete history]
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Keywords - Technical termi

Complete proteome

External Data

Dasty 3

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