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Protein

DNA ligase

Gene

lig

Organism
Methanococcoides burtonii (strain DSM 6242 / NBRC 107633 / OCM 468 / ACE-M)
Status
Reviewed-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 sitei260 – 2601ATPUniRule annotation
Active sitei262 – 2621N6-AMP-lysine intermediateUniRule annotation
Binding sitei267 – 2671ATPUniRule annotation
Binding sitei282 – 2821ATPUniRule annotation
Binding sitei312 – 3121ATPUniRule annotation
Binding sitei352 – 3521ATPUniRule annotation
Binding sitei427 – 4271ATPUniRule annotation
Binding sitei433 – 4331ATPUniRule 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

Ligase

Keywords - Biological processi

Cell cycle, Cell division, DNA damage, DNA recombination, DNA repair, DNA replication

Keywords - Ligandi

ATP-binding, Magnesium, Metal-binding, Nucleotide-binding

Enzyme and pathway databases

BioCyciMBUR259564:GHBZ-1109-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:Mbur_1088
OrganismiMethanococcoides burtonii (strain DSM 6242 / NBRC 107633 / OCM 468 / ACE-M)
Taxonomic identifieri259564 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaMethanomicrobiaMethanosarcinalesMethanosarcinaceaeMethanococcoides
ProteomesiUP000001979 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 567567DNA ligasePRO_1000049869Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi259564.Mbur_1088.

Structurei

3D structure databases

ProteinModelPortaliQ12X08.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiCOG1793.
HOGENOMiHOG000036008.
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.

Q12X08-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTDFKEFADV CKQIEHISSS LEMTDVVSDM LKSISTEELP VVTHFVMGDV
60 70 80 90 100
FPAWSVEQLG VGTSLLYSAL SESSGLSLKE IEDLVRSTGD IGETAVAALG
110 120 130 140 150
KKKKNKKKNQ ASLSFFSEDA ASVSISIMDV FERFLDISRY SGAGSQSSKM
160 170 180 190 200
RNLQFLFNSS SSEEARYLAR LTIEDLRIGV GEGIVRDAIS KAFDVPAGDI
210 220 230 240 250
ERGFMLTNDL GLVAVAAKEG GIEEISKLRM ELDRPIKMML AQVTPSIEAA
260 270 280 290 300
IKDLGMLAVE WKFDGARVQI HKKGDSINIF SRRLENVTLS LPDIVEAVKL
310 320 330 340 350
HVKADSAILE GEAVAVDENG APRAFQDILK RFRRKYDVET MVREIPLTLN
360 370 380 390 400
LFDILYLNGD VLMDQSLLRR REQLVACVEN CDSIKVDEQV LTDDVNVVND
410 420 430 440 450
IYAAALNGGH EGVMLKNPEA SYSPGKRGKN WLKKKPIMET LDLVVIAAEW
460 470 480 490 500
GYGKRANLIG SYALACFDPE DGKFLPIGKV ATGFSDEQLA ELTEVFSELI
510 520 530 540 550
IGESGREIEL KPDVVFEIAF EEIQKSTNYG SGYALRFPRL VNVREDKSPE
560
EAETIDRIES IYLSQRG
Length:567
Mass (Da):62,743
Last modified:August 21, 2006 - v1
Checksum:i3942FDE27D6C32F0
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000300 Genomic DNA. Translation: ABE52018.1.
RefSeqiWP_011499166.1. NC_007955.1.
YP_565768.1. NC_007955.1.

Genome annotation databases

EnsemblBacteriaiABE52018; ABE52018; Mbur_1088.
GeneIDi3998025.
KEGGimbu:Mbur_1088.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000300 Genomic DNA. Translation: ABE52018.1.
RefSeqiWP_011499166.1. NC_007955.1.
YP_565768.1. NC_007955.1.

3D structure databases

ProteinModelPortaliQ12X08.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi259564.Mbur_1088.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABE52018; ABE52018; Mbur_1088.
GeneIDi3998025.
KEGGimbu:Mbur_1088.

Phylogenomic databases

eggNOGiCOG1793.
HOGENOMiHOG000036008.
KOiK10747.
OMAiGRPRPFQ.

Enzyme and pathway databases

BioCyciMBUR259564:GHBZ-1109-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. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: DSM 6242 / NBRC 107633 / OCM 468 / ACE-M.

Entry informationi

Entry nameiDNLI_METBU
AccessioniPrimary (citable) accession number: Q12X08
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 14, 2008
Last sequence update: August 21, 2006
Last modified: February 3, 2015
This is version 68 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

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.