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A0R5T3 (LIGC2_MYCS2) Reviewed, UniProtKB/Swiss-Prot

Last modified April 16, 2014. Version 55. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (1) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
DNA ligase C2

EC=6.5.1.1
Alternative name(s):
Polydeoxyribonucleotide synthase [ATP]
Gene names
Name:ligC2
Ordered Locus Names:MSMEG_6304, MSMEI_6138
OrganismMycobacterium smegmatis (strain ATCC 700084 / mc(2)155) [Reference proteome] [HAMAP]
Taxonomic identifier246196 [NCBI]
Taxonomic lineageBacteriaActinobacteriaActinobacteridaeActinomycetalesCorynebacterineaeMycobacteriaceaeMycobacterium

Protein attributes

Sequence length354 AA.
Sequence statusComplete.
Protein existenceInferred from homology

General annotation (Comments)

Function

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. Ref.5

Catalytic activity

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

Disruption phenotype

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. Ref.4 Ref.5

Sequence similarities

Belongs to the ATP-dependent DNA ligase family.

Ontologies

Keywords
   LigandATP-binding
Nucleotide-binding
   Molecular functionLigase
   Technical termComplete proteome
Reference proteome
Gene Ontology (GO)
   Biological_processDNA recombination

Inferred from electronic annotation. Source: InterPro

DNA repair

Inferred from electronic annotation. Source: InterPro

   Molecular_functionATP binding

Inferred from electronic annotation. Source: InterPro

DNA ligase (ATP) activity

Inferred from electronic annotation. Source: UniProtKB-EC

Complete GO annotation...

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 354354DNA ligase C2
PRO_0000425952

Sites

Active site291N6-AMP-lysine intermediate By similarity

Sequences

Sequence LengthMass (Da)Tools
A0R5T3 [UniParc].

Last modified January 9, 2007. Version 1.
Checksum: 63D2ADAF94BE7F63

FASTA35439,324
        10         20         30         40         50         60 
MDLPVLPPVS PMLSKSVNQI PPGMSYEPKW DGFRSILFRD GAEVELGSRK ERPMTRYFPE 

        70         80         90        100        110        120 
LVAAALTELP DRCVIDGEIV LPADNHLDFE ALQLRLHPAA SRVAMLAEQT PAAFIAFDLL 

       130        140        150        160        170        180 
ALGDDDYTGR PFSERRAALE TALADAGPTF HLTPATTDLP TAQRWFHEFE GAGLDGVIAK 

       190        200        210        220        230        240 
PLDLTYQPDK RVMFKVKHQR TADCVVAGYR LHKSGADAVG SLLLGLYDDD GSLASVGVIG 

       250        260        270        280        290        300 
AFPMATRRAL FTELQTLVAD FDHHPWNWAA QAAADPELAR RYGGGSRWNA GKDLSFVPLR 

       310        320        330        340        350 
PERLVEVRYD HMEGRRFRHT AQFNRWRPDR DARSCTFAQL DSPPHSSSVT SCRV 

« Hide

References

« Hide 'large scale' references
[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.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
CP000480 Genomic DNA. Translation: ABK75022.1.
CP001663 Genomic DNA. Translation: AFP42568.1.
RefSeqYP_006570863.1. NC_018289.1.
YP_890521.1. NC_008596.1.

3D structure databases

ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING246196.MSMEG_6304.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaABK75022; ABK75022; MSMEG_6304.
AFP42568; AFP42568; MSMEI_6138.
GeneID13427467.
4537064.
KEGGmsg:MSMEI_6138.
msm:MSMEG_6304.
PATRIC18084845. VBIMycSme59918_6139.

Phylogenomic databases

eggNOGCOG1793.
HOGENOMHOG000222508.
KOK01971.
OMAERTADCV.
OrthoDBEOG63NMFT.
ProtClustDBPRK08224.

Enzyme and pathway databases

BioCycMSME246196:GJ4Y-6302-MONOMER.

Family and domain databases

Gene3D2.40.50.140. 1 hit.
InterProIPR012309. DNA_ligase_ATP-dep_C.
IPR012310. DNA_ligase_ATP-dep_cent.
IPR012340. NA-bd_OB-fold.
[Graphical view]
PfamPF04679. DNA_ligase_A_C. 1 hit.
PF01068. DNA_ligase_A_M. 1 hit.
[Graphical view]
SUPFAMSSF50249. SSF50249. 1 hit.
PROSITEPS50160. DNA_LIGASE_A3. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry nameLIGC2_MYCS2
AccessionPrimary (citable) accession number: A0R5T3
Entry history
Integrated into UniProtKB/Swiss-Prot: March 19, 2014
Last sequence update: January 9, 2007
Last modified: April 16, 2014
This is version 55 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families