Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein

DNA ligase

Gene

lig

Organism
Pyrococcus sp. ST04
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 sitei247 – 2471ATPUniRule annotation
Active sitei249 – 2491N6-AMP-lysine intermediateUniRule annotation
Binding sitei254 – 2541ATPUniRule annotation
Binding sitei269 – 2691ATPUniRule annotation
Binding sitei299 – 2991ATPUniRule annotation
Binding sitei339 – 3391ATPUniRule annotation
Binding sitei414 – 4141ATPUniRule annotation
Binding sitei420 – 4201ATPUniRule 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

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]UniRule annotation
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

        10         20         30         40         50
MRYLELAQLY QKLEKTTMKL IKTRLVADFL KKVPDDHLEF IPYLILGDVF
60 70 80 90 100
PEWDERELGV GEKLLIKAVA MATGIDANEI ENSVKDTGDL GESIALAVKK
110 120 130 140 150
RKQKSFFSQP LTIKRVYQTL VKVAETTGEG SQEKKMKYLA NLFMDAEPIE
160 170 180 190 200
AKYIARTVLG TMRTGVAEGL LRDAIALAFH VKVELVERAY MLTSDFGFVA
210 220 230 240 250
KVAKLEGNEG LAKVQVQIGK PIKPMLAQQA ANIKEALLEM GGEAEFEIKY
260 270 280 290 300
DGARVQVHKD GDKIIVYSRR LENVTRAIPE IVEALKQSVK PNKAIVEGEL
310 320 330 340 350
VAIGEDGRPL PFQYVLRRFR RKHNIQEMMK KIPLELNLFD VLYVDGESMI
360 370 380 390 400
DVKFIDRRKK LEEIIEPNGK IKVAENLITK KVEEAEAFYK KALEMGHEGL
410 420 430 440 450
MAKRLDATYE PGNRGKKWLK IKPTMENLDL VIIGAEWGEG RRAHLLGSFI
460 470 480 490 500
LGAYDPETGE FLEVGKVGSG FTDEDLVEFT KMLKPLIIKE EGKRVWIEPK
510 520 530 540 550
IVIEVTYQEI QKSPKYKSGF ALRFPRYVAL RDDKGPEDAD TIERIAQLYE

LQERMKGKV
Length:559
Mass (Da):63,465
Last modified:September 5, 2012 - v1
Checksum:i40405D1D414E2625
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
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:
EMBLi
GenBanki
DDBJi
Links Updated
CP003534 Genomic DNA. Translation: AFK23087.1.
RefSeqiWP_014734609.1. NC_017946.1.
YP_006355162.1. NC_017946.1.

3D structure databases

ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

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

Phylogenomic databases

KOiK10747.

Enzyme and pathway databases

BioCyciPSP1183377:GLJ2-1559-MONOMER.

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. "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: February 4, 2015
This is version 19 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.