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Protein

DNA ligase

Gene

lig

Organism
Methanobrevibacter smithii (strain PS / ATCC 35061 / DSM 861)
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 sitei246 – 2461ATPUniRule annotation
Active sitei248 – 2481N6-AMP-lysine intermediateUniRule annotation
Binding sitei253 – 2531ATPUniRule annotation
Binding sitei268 – 2681ATPUniRule annotation
Binding sitei298 – 2981ATPUniRule annotation
Binding sitei337 – 3371ATPUniRule 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

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

BioCyciMSMI420247:GHWZ-657-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:Msm_0645
OrganismiMethanobrevibacter smithii (strain PS / ATCC 35061 / DSM 861)
Taxonomic identifieri420247 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaMethanobacteriaMethanobacterialesMethanobacteriaceaeMethanobrevibacter
ProteomesiUP000001992 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 551551DNA ligasePRO_1000049872Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi420247.Msm_0645.

Structurei

3D structure databases

ProteinModelPortaliA5UKX2.
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.
PROSITEiPS00333. DNA_LIGASE_A2. 1 hit.
PS50160. DNA_LIGASE_A3. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

A5UKX2-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKYQELVDVY SALENTTKRL EKTQIISNFL LKLDSTTLEQ VGLLILGSIF
60 70 80 90 100
PAWSDKEIGI GNKLVMQAVG EAVGVTPDKV EDAVRDQGDI GLACISLYAK
110 120 130 140 150
KSQTTFFSQP LTIDFVFKSL RKLSEKSGAR STKRKIDIIL EMLSQASASE
160 170 180 190 200
AKYLTRTILE ELRIGVGEGV VRDAIAQAFN IDKSVVERAM MLTNDLGLIA
210 220 230 240 250
VVAKEKGEGG LKELNLTPGT PVKPMLAQLA PPIPEIINEM GVAICETKYD
260 270 280 290 300
GIRLQVHRHS DEIKIFTRRL ENITHALPEI VDLFNEYLPH EDYIVEGEVI
310 320 330 340 350
ATRDGNPLSF QNILHRVRRK HNIDEAMEQV PLKVFLFDLL YYIVPMIDEP
360 370 380 390 400
LLKRRKKLEE IVNTTPDEIN LSNMVYGTPD TIKEVEDLFE LSIAQHHEGI
410 420 430 440 450
MIKDAGEPYI PGLRGKKMLK YKAEPETLDM VVVGGTYGIG KRGDFVGSYL
460 470 480 490 500
VSLRDEDNNL KTVAYVATGL DDATLEYLTK KMKEYELSTK GREIVVEPKI
510 520 530 540 550
VLEVAFSEIV ESPEYETGYS LRFPVVKNIR KDKGVDDIDT VERLISMYET

Q
Length:551
Mass (Da):61,948
Last modified:July 10, 2007 - v1
Checksum:i5CB10B16F770ACFB
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000678 Genomic DNA. Translation: ABQ86850.1.
RefSeqiYP_001273218.1. NC_009515.1.

Genome annotation databases

EnsemblBacteriaiABQ86850; ABQ86850; Msm_0645.
GeneIDi5216232.
KEGGimsi:Msm_0645.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000678 Genomic DNA. Translation: ABQ86850.1.
RefSeqiYP_001273218.1. NC_009515.1.

3D structure databases

ProteinModelPortaliA5UKX2.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi420247.Msm_0645.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABQ86850; ABQ86850; Msm_0645.
GeneIDi5216232.
KEGGimsi:Msm_0645.

Phylogenomic databases

eggNOGiCOG1793.
HOGENOMiHOG000036008.
KOiK10747.
OMAiGRPRPFQ.

Enzyme and pathway databases

BioCyciMSMI420247:GHWZ-657-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.
PROSITEiPS00333. DNA_LIGASE_A2. 1 hit.
PS50160. DNA_LIGASE_A3. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: PS / ATCC 35061 / DSM 861.

Entry informationi

Entry nameiDNLI_METS3
AccessioniPrimary (citable) accession number: A5UKX2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: July 10, 2007
Last modified: April 29, 2015
This is version 58 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.