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Protein

DNA ligase

Gene

lig

Organism
Methanobacterium paludis (strain DSM 25820 / JCM 18151 / SWAN1)
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 sitei256 – 2561ATPUniRule annotation
Active sitei258 – 2581N6-AMP-lysine intermediateUniRule annotation
Binding sitei263 – 2631ATPUniRule annotation
Binding sitei278 – 2781ATPUniRule annotation
Binding sitei308 – 3081ATPUniRule annotation
Binding sitei347 – 3471ATPUniRule annotation
Binding sitei424 – 4241ATPUniRule annotation
Binding sitei430 – 4301ATPUniRule 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

BioCyciMSP868131:GHW8-177-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
Ordered Locus Names:MSWAN_0175Imported
OrganismiMethanobacterium paludis (strain DSM 25820 / JCM 18151 / SWAN1)Imported
Taxonomic identifieri868131 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaMethanobacteriaMethanobacterialesMethanobacteriaceaeMethanobacterium
ProteomesiUP000009231: Chromosome

Structurei

3D structure databases

ProteinModelPortaliF6D1J3.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the ATP-dependent DNA ligase family.UniRule annotation

Phylogenomic databases

KOiK10747.
OMAiGRPRPFQ.

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

Sequencei

Sequence statusi: Complete.

F6D1J3-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MNSKINMKYM ELVEVYEALD STTKRLEKTS ILAKFFKIMG NEEPELLPIV
60 70 80 90 100
TLMSLGRIFP TWSEEELGLG SKLLMKAISL VAGVGPDDVE NMTRDAGDIG
110 120 130 140 150
LAAETLLKRK QQSTLFARQP LTIEKVHSNL IKITKISGNR AQNKKMEILR
160 170 180 190 200
ELFSSASPKE AKYITRTVLE ELRVGVGEGT IKDAISEAFE VEKTAVERAH
210 220 230 240 250
MLTNDLGLVA EVAKEEGEEG LGKLTLKPGK PVKPMLAQLS PGIKISVEEM
260 270 280 290 300
GWALCETKYD GIRVQIHRLG DDINIFTRRL ENISNAVPEI VEYIRKSLPA
310 320 330 340 350
CDFIVEGEII VTRDGKPISF QYILQRVRRK YDIEKMREKV PLKLYLFDVL
360 370 380 390 400
YYDGPQIDTP FEERRRILES IVTVTEHKLE LSSQVKTTPE EIWKAEDLFT
410 420 430 440 450
ASIKGGHEGI MIKDPHAPYM PGIRGKKMLK LKAVPETLDL VIVGGTYGKG
460 470 480 490 500
RRAHVIGSYL LAVRDENNDF KTLAHAATGL DDNMLIELSR MVEPLIVKKM
510 520 530 540 550
GRKVEITPSI ILEIAYSEIV KSPEYESGYS LRFPVVKRIR EDIGLDDIDT
560
VERVDSMFKE V
Length:561
Mass (Da):63,264
Last modified:July 27, 2011 - v1
Checksum:i4D906B059857AFA0
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP002772 Genomic DNA. Translation: AEG17221.1.
RefSeqiWP_013824723.1. NC_015574.1.
YP_004519022.1. NC_015574.1.

Genome annotation databases

EnsemblBacteriaiAEG17221; AEG17221; MSWAN_0175.
GeneIDi10667653.
KEGGimew:MSWAN_0175.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP002772 Genomic DNA. Translation: AEG17221.1.
RefSeqiWP_013824723.1. NC_015574.1.
YP_004519022.1. NC_015574.1.

3D structure databases

ProteinModelPortaliF6D1J3.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAEG17221; AEG17221; MSWAN_0175.
GeneIDi10667653.
KEGGimew:MSWAN_0175.

Phylogenomic databases

KOiK10747.
OMAiGRPRPFQ.

Enzyme and pathway databases

BioCyciMSP868131:GHW8-177-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.
PS50160. DNA_LIGASE_A3. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "Complete sequence of Methanobacterium sp. SWAN-1."
    Lucas S., Han J., Lapidus A., Cheng J.-F., Goodwin L., Pitluck S., Peters L., Ovchinnikova G., Chertkov O., Han C., Tapia R., Land M., Hauser L., Kyrpides N., Ivanova N., Pagani I., Cadillo-Quiroz H., Imachi H.
    , Zinder S., Liu W., Woyke T.
    Submitted (MAY-2011) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: DSM 25820 / JCM 18151 / SWAN1Imported.

Entry informationi

Entry nameiF6D1J3_METPW
AccessioniPrimary (citable) accession number: F6D1J3
Entry historyi
Integrated into UniProtKB/TrEMBL: July 27, 2011
Last sequence update: July 27, 2011
Last modified: February 4, 2015
This is version 22 of the entry and version 1 of the sequence. [Complete history]
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference 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.