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A0R5T3

- LIGC2_MYCS2

UniProt

A0R5T3 - LIGC2_MYCS2

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Protein
DNA ligase C2
Gene
ligC2, MSMEG_6304, MSMEI_6138
Organism
Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)
Status
Reviewed - 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. Has weak intrinsic nick joining activities and accumulates DNA-adenylate. Acts as a backup for LigD in the Ku-LigD-dependent NHEJ pathway.1 Publication

Catalytic activityi

ATP + (deoxyribonucleotide)(n) + (deoxyribonucleotide)(m) = AMP + diphosphate + (deoxyribonucleotide)(n+m).

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei29 – 291N6-AMP-lysine intermediate By similarity

GO - Molecular functioni

  1. ATP binding Source: UniProtKB-KW
  2. DNA ligase (ATP) activity Source: UniProtKB-EC

GO - Biological processi

  1. DNA recombination Source: InterPro
  2. DNA repair Source: InterPro
Complete GO annotation...

Keywords - Molecular functioni

Ligase

Keywords - Ligandi

ATP-binding, Nucleotide-binding

Enzyme and pathway databases

BioCyciMSME246196:GJ4Y-6302-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
DNA ligase C2 (EC:6.5.1.1)
Alternative name(s):
Polydeoxyribonucleotide synthase [ATP]
Gene namesi
Name:ligC2
Ordered Locus Names:MSMEG_6304, MSMEI_6138
OrganismiMycobacterium smegmatis (strain ATCC 700084 / mc(2)155)
Taxonomic identifieri246196 [NCBI]
Taxonomic lineageiBacteriaActinobacteriaActinobacteridaeActinomycetalesCorynebacterineaeMycobacteriaceaeMycobacterium
ProteomesiUP000000757: Chromosome, UP000006158: Chromosome

Pathology & Biotechi

Disruption phenotypei

Not essential; a double ligC1-ligC2 mutant grows normally, no effect on NHEJ. In a triple deletion with ligD NHEJ on blunt-ended plasmid is 90-fold impaired. In quadruple ligB-ligC1-ligC2-ligD deletions NHEJ on blunt and 5'-overhangs is 0.22 and 0.12% of wild-type respectively; only 4-fold decrease in 3'-overhang NHEJ.2 Publications

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 354354DNA ligase C2
PRO_0000425952Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi246196.MSMEG_6304.

Structurei

3D structure databases

ProteinModelPortaliA0R5T3.

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG1793.
HOGENOMiHOG000222508.
KOiK01971.
OMAiHERTADC.
OrthoDBiEOG63NMFT.

Family and domain databases

Gene3Di2.40.50.140. 1 hit.
InterProiIPR012309. DNA_ligase_ATP-dep_C.
IPR012310. DNA_ligase_ATP-dep_cent.
IPR012340. NA-bd_OB-fold.
[Graphical view]
PfamiPF04679. DNA_ligase_A_C. 1 hit.
PF01068. DNA_ligase_A_M. 1 hit.
[Graphical view]
SUPFAMiSSF50249. SSF50249. 1 hit.
PROSITEiPS50160. DNA_LIGASE_A3. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

A0R5T3-1 [UniParc]FASTAAdd to Basket

« Hide

MDLPVLPPVS PMLSKSVNQI PPGMSYEPKW DGFRSILFRD GAEVELGSRK    50
ERPMTRYFPE LVAAALTELP DRCVIDGEIV LPADNHLDFE ALQLRLHPAA 100
SRVAMLAEQT PAAFIAFDLL ALGDDDYTGR PFSERRAALE TALADAGPTF 150
HLTPATTDLP TAQRWFHEFE GAGLDGVIAK PLDLTYQPDK RVMFKVKHQR 200
TADCVVAGYR LHKSGADAVG SLLLGLYDDD GSLASVGVIG AFPMATRRAL 250
FTELQTLVAD FDHHPWNWAA QAAADPELAR RYGGGSRWNA GKDLSFVPLR 300
PERLVEVRYD HMEGRRFRHT AQFNRWRPDR DARSCTFAQL DSPPHSSSVT 350
SCRV 354
Length:354
Mass (Da):39,324
Last modified:January 9, 2007 - v1
Checksum:i63D2ADAF94BE7F63
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000480 Genomic DNA. Translation: ABK75022.1.
CP001663 Genomic DNA. Translation: AFP42568.1.
RefSeqiYP_006570863.1. NC_018289.1.
YP_890521.1. NC_008596.1.

Genome annotation databases

EnsemblBacteriaiABK75022; ABK75022; MSMEG_6304.
AFP42568; AFP42568; MSMEI_6138.
GeneIDi4537064.
KEGGimsg:MSMEI_6138.
msm:MSMEG_6304.
PATRICi18084845. VBIMycSme59918_6139.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000480 Genomic DNA. Translation: ABK75022.1 .
CP001663 Genomic DNA. Translation: AFP42568.1 .
RefSeqi YP_006570863.1. NC_018289.1.
YP_890521.1. NC_008596.1.

3D structure databases

ProteinModelPortali A0R5T3.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 246196.MSMEG_6304.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ABK75022 ; ABK75022 ; MSMEG_6304 .
AFP42568 ; AFP42568 ; MSMEI_6138 .
GeneIDi 4537064.
KEGGi msg:MSMEI_6138.
msm:MSMEG_6304.
PATRICi 18084845. VBIMycSme59918_6139.

Phylogenomic databases

eggNOGi COG1793.
HOGENOMi HOG000222508.
KOi K01971.
OMAi HERTADC.
OrthoDBi EOG63NMFT.

Enzyme and pathway databases

BioCyci MSME246196:GJ4Y-6302-MONOMER.

Family and domain databases

Gene3Di 2.40.50.140. 1 hit.
InterProi IPR012309. DNA_ligase_ATP-dep_C.
IPR012310. DNA_ligase_ATP-dep_cent.
IPR012340. NA-bd_OB-fold.
[Graphical view ]
Pfami PF04679. DNA_ligase_A_C. 1 hit.
PF01068. DNA_ligase_A_M. 1 hit.
[Graphical view ]
SUPFAMi SSF50249. SSF50249. 1 hit.
PROSITEi PS50160. DNA_LIGASE_A3. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. Fleischmann R.D., Dodson R.J., Haft D.H., Merkel J.S., Nelson W.C., Fraser C.M.
    Submitted (OCT-2006) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 700084 / mc(2)155.
  2. "Interrupted coding sequences in Mycobacterium smegmatis: authentic mutations or sequencing errors?"
    Deshayes C., Perrodou E., Gallien S., Euphrasie D., Schaeffer C., Van-Dorsselaer A., Poch O., Lecompte O., Reyrat J.-M.
    Genome Biol. 8:R20.1-R20.9(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 700084 / mc(2)155.
  3. "Ortho-proteogenomics: multiple proteomes investigation through orthology and a new MS-based protocol."
    Gallien S., Perrodou E., Carapito C., Deshayes C., Reyrat J.-M., Van Dorsselaer A., Poch O., Schaeffer C., Lecompte O.
    Genome Res. 19:128-135(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 700084 / mc(2)155.
  4. "Mechanism of nonhomologous end-joining in mycobacteria: a low-fidelity repair system driven by Ku, ligase D and ligase C."
    Gong C., Bongiorno P., Martins A., Stephanou N.C., Zhu H., Shuman S., Glickman M.S.
    Nat. Struct. Mol. Biol. 12:304-312(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: DISRUPTION PHENOTYPE.
    Strain: ATCC 700084 / mc(2)155.
  5. "The pathways and outcomes of mycobacterial NHEJ depend on the structure of the broken DNA ends."
    Aniukwu J., Glickman M.S., Shuman S.
    Genes Dev. 22:512-527(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, DISRUPTION PHENOTYPE.
    Strain: ATCC 700084 / mc(2)155.

Entry informationi

Entry nameiLIGC2_MYCS2
AccessioniPrimary (citable) accession number: A0R5T3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 19, 2014
Last sequence update: January 9, 2007
Last modified: July 9, 2014
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

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