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I3RFS7 (I3RFS7_9EURY) Unreviewed, UniProtKB/TrEMBL

Last modified February 19, 2014. Version 12. Feed History...

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

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:Py04_1516 EMBL AFK23087.1
OrganismPyrococcus sp. ST04 [Complete proteome] EMBL AFK23087.1
Taxonomic identifier1183377 [NCBI]
Taxonomic lineageArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaePyrococcus

Protein attributes

Sequence length559 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. HAMAP-Rule MF_00407

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Sites

Active site2491N6-AMP-lysine intermediate By similarity HAMAP-Rule MF_00407
Binding site2471ATP By similarity HAMAP-Rule MF_00407
Binding site2541ATP By similarity HAMAP-Rule MF_00407
Binding site2691ATP By similarity HAMAP-Rule MF_00407
Binding site2991ATP By similarity HAMAP-Rule MF_00407
Binding site3391ATP By similarity HAMAP-Rule MF_00407
Binding site4141ATP By similarity HAMAP-Rule MF_00407
Binding site4201ATP By similarity HAMAP-Rule MF_00407

Sequences

Sequence LengthMass (Da)Tools
I3RFS7 [UniParc].

Last modified September 5, 2012. Version 1.
Checksum: 40405D1D414E2625

FASTA55963,465
        10         20         30         40         50         60 
MRYLELAQLY QKLEKTTMKL IKTRLVADFL KKVPDDHLEF IPYLILGDVF PEWDERELGV 

        70         80         90        100        110        120 
GEKLLIKAVA MATGIDANEI ENSVKDTGDL GESIALAVKK RKQKSFFSQP LTIKRVYQTL 

       130        140        150        160        170        180 
VKVAETTGEG SQEKKMKYLA NLFMDAEPIE AKYIARTVLG TMRTGVAEGL LRDAIALAFH 

       190        200        210        220        230        240 
VKVELVERAY MLTSDFGFVA KVAKLEGNEG LAKVQVQIGK PIKPMLAQQA ANIKEALLEM 

       250        260        270        280        290        300 
GGEAEFEIKY DGARVQVHKD GDKIIVYSRR LENVTRAIPE IVEALKQSVK PNKAIVEGEL 

       310        320        330        340        350        360 
VAIGEDGRPL PFQYVLRRFR RKHNIQEMMK KIPLELNLFD VLYVDGESMI DVKFIDRRKK 

       370        380        390        400        410        420 
LEEIIEPNGK IKVAENLITK KVEEAEAFYK KALEMGHEGL MAKRLDATYE PGNRGKKWLK 

       430        440        450        460        470        480 
IKPTMENLDL VIIGAEWGEG RRAHLLGSFI LGAYDPETGE FLEVGKVGSG FTDEDLVEFT 

       490        500        510        520        530        540 
KMLKPLIIKE EGKRVWIEPK IVIEVTYQEI QKSPKYKSGF ALRFPRYVAL RDDKGPEDAD 

       550 
TIERIAQLYE LQERMKGKV 

« Hide

References

[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.
Strain: ST04 EMBL AFK23087.1.
[2]Jung J.-H., Lee J.-H., Holden J.F., Seo D.-H., Shin H., Kim W., Ryu S., Park C.-S.
Submitted (MAY-2012) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE.
Strain: ST04 EMBL AFK23087.1.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
CP003534 Genomic DNA. Translation: AFK23087.1.
RefSeqYP_006355162.1. NC_017946.1.

3D structure databases

ModBaseSearch...
MobiDBSearch...

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaAFK23087; AFK23087; Py04_1516.
GeneID13022782.
KEGGpys:Py04_1516.

Organism-specific databases

CMRSearch...

Phylogenomic databases

KOK10747.

Enzyme and pathway databases

BioCycPSP1183377:GLJ2-1559-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 nameI3RFS7_9EURY
AccessionPrimary (citable) accession number: I3RFS7
Entry history
Integrated into UniProtKB/TrEMBL: September 5, 2012
Last sequence update: September 5, 2012
Last modified: February 19, 2014
This is version 12 of the entry and version 1 of the sequence. [Complete history]
Entry statusUnreviewed (UniProtKB/TrEMBL)