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D3E0Q0

- D3E0Q0_METRM

UniProt

D3E0Q0 - D3E0Q0_METRM

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Protein
DNA ligase
Gene
dnll, lig, mru_0445
Organism
Methanobrevibacter ruminantium (strain ATCC 35063 / DSM 1093 / JCM 13430 / M1) (Methanobacterium ruminantium)
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 sitei246 – 2461ATP By similarityUniRule annotation
Active sitei248 – 2481N6-AMP-lysine intermediate By similarityUniRule annotation
Binding sitei253 – 2531ATP By similarityUniRule annotation
Binding sitei268 – 2681ATP By similarityUniRule annotation
Binding sitei298 – 2981ATP 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

BioCyciMRUM634498:GHDG-468-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:dnllImported
Synonyms:ligUniRule annotation
Ordered Locus Names:mru_0445Imported
OrganismiMethanobrevibacter ruminantium (strain ATCC 35063 / DSM 1093 / JCM 13430 / M1) (Methanobacterium ruminantium)Imported
Taxonomic identifieri634498 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaMethanobacteriaMethanobacterialesMethanobacteriaceaeMethanobrevibacter
ProteomesiUP000008680: Chromosome

Structurei

3D structure databases

ProteinModelPortaliD3E0Q0.

Family & Domainsi

Sequence similaritiesi

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

Phylogenomic databases

HOGENOMiHOG000036008.
KOiK10747.
OMAiARVQVHK.

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.

D3E0Q0-1 [UniParc]FASTAAdd to Basket

« Hide

MKYEELVNVY EALGATTKRL EKTEILADFL KTVELEDLQK ITLMALGRVF    50
PPWSEEEQGI GDKLVMKAVG DAVGVSVAVV EDAIRDEGDI GAAAEKLYGK 100
KTQMTFFSQP LTVNFVYNQL RKLAKITGNR STAKKISNIL ELLSSASALE 150
AKYICRTILE ELRIGVGEGI IRDAISQAFG VDKALAERAH MLTNDLGLVA 200
KVAKEEGEDG LKKLSLIPGR PVKPMLAQLS EGIEISINEM GCALCETKYD 250
GIRMQVHKKD DEITIFTRRL ENVTMALPEA VDLIREAFPD EDFIAEGEII 300
AIRDGKPTTF QNILQRVRRK HNIEEAMEKV PIKIYLYDLL YFKEPTIDEP 350
IIKRREILES VVDCSNPNLA LSSLVKVGPD NIDDAVDLFN KSIEGGHEGI 400
MIKDCDEPYI PGIRGKKMLK LKAEPETLDA VVIGGVKGIG KRGDFIGSYV 450
IALRDENDQL QPIAHVGTGL SDDDLANLTE KMEALKITEK GTRITVHPKI 500
VFEIAYSEIV KSPEYSAGYS LRFPVVKRIR DDKGVDDIDT IERLESMFKG 550
Length:550
Mass (Da):61,113
Last modified:March 23, 2010 - v1
Checksum:i5C33843B98B80B05
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP001719 Genomic DNA. Translation: ADC46296.1.
RefSeqiYP_003423188.1. NC_013790.1.

Genome annotation databases

EnsemblBacteriaiADC46296; ADC46296; mru_0445.
GeneIDi8770085.
KEGGimru:mru_0445.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP001719 Genomic DNA. Translation: ADC46296.1 .
RefSeqi YP_003423188.1. NC_013790.1.

3D structure databases

ProteinModelPortali D3E0Q0.
ModBasei Search...
MobiDBi Search...

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ADC46296 ; ADC46296 ; mru_0445 .
GeneIDi 8770085.
KEGGi mru:mru_0445.

Phylogenomic databases

HOGENOMi HOG000036008.
KOi K10747.
OMAi ARVQVHK.

Enzyme and pathway databases

BioCyci MRUM634498:GHDG-468-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. "The genome sequence of the rumen methanogen Methanobrevibacter ruminantium reveals new possibilities for controlling ruminant methane emissions."
    Leahy S.C., Kelly W.J., Altermann E., Ronimus R.S., Yeoman C.J., Pacheco D.M., Li D., Kong Z., McTavish S., Sang C., Lambie S.C., Janssen P.H., Dey D., Attwood G.T.
    PLoS ONE 5:E8926-E8926(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 35063 / DSM 1093 / JCM 13430 / M1.

Entry informationi

Entry nameiD3E0Q0_METRM
AccessioniPrimary (citable) accession number: D3E0Q0
Entry historyi
Integrated into UniProtKB/TrEMBL: March 23, 2010
Last sequence update: March 23, 2010
Last modified: June 11, 2014
This is version 29 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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