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B2GL64 (DNLJ_KOCRD) Reviewed, UniProtKB/Swiss-Prot

Last modified January 25, 2012. Version 31. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (1) | Third-party data text xml rdf/xml gff fasta
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Names and origin

Protein namesRecommended name:
DNA ligase
EC=6.5.1.2
Alternative name(s):
Polydeoxyribonucleotide synthase [NAD+]
Gene names
Name:ligA
Ordered Locus Names:KRH_16730
OrganismKocuria rhizophila (strain ATCC 9341 / DSM 348 / NBRC 103217 / DC2201) [Complete proteome] [HAMAP]
Taxonomic identifier378753 [NCBI]
Taxonomic lineageBacteria › Actinobacteria › Actinobacteridae › Actinomycetales › Micrococcineae › Micrococcaceae › Kocuria

Protein attributes

Sequence length766 AA.
Sequence statusComplete.
Protein existenceInferred from homology

General annotation (Comments)

Function

DNA ligase that catalyzes the formation of phosphodiester linkages between 5'-phosphoryl and 3'-hydroxyl groups in double-stranded DNA using NAD as a coenzyme and as the energy source for the reaction. It is essential for DNA replication and repair of damaged DNA By similarity. HAMAP MF_01588

Catalytic activity

NAD+ + (deoxyribonucleotide)(n) + (deoxyribonucleotide)(m) = AMP + nicotinamide nucleotide + (deoxyribonucleotide)(n+m). HAMAP MF_01588

Cofactor

Magnesium or manganese By similarity. HAMAP MF_01588

Sequence similarities

Belongs to the NAD-dependent DNA ligase family. LigA subfamily.

Contains 1 BRCT domain.

Ontologies

Keywords
   Biological processDNA damage
DNA repair
DNA replication
   LigandMagnesium
Manganese
Metal-binding
NAD
Zinc
   Molecular functionLigase
   Technical termComplete proteome
Gene Ontology (GO)
   Biological processDNA repair

Inferred from electronic annotation. Source: UniProtKB-KW

DNA replication

Inferred from electronic annotation. Source: UniProtKB-KW

   Cellular componentintracellular

Inferred from electronic annotation. Source: InterPro

   Molecular functionDNA ligase (NAD+) activity

Inferred from electronic annotation. Source: EC

metal ion binding

Inferred from electronic annotation. Source: UniProtKB-KW

Complete GO annotation...

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 766766DNA ligase HAMAP MF_01588
PRO_0000380402

Regions

Domain669 – 75890BRCT
Nucleotide binding57 – 615NAD By similarity
Nucleotide binding106 – 1072NAD By similarity

Sites

Active site1431N6-AMP-lysine intermediate By similarity
Metal binding4351Zinc By similarity
Metal binding4381Zinc By similarity
Metal binding4541Zinc By similarity
Metal binding4601Zinc By similarity
Binding site1411NAD By similarity
Binding site1641NAD By similarity
Binding site2011NAD By similarity
Binding site3171NAD By similarity
Binding site3411NAD By similarity

Sequences

Sequence LengthMass (Da)Tools
B2GL64 [UniParc].

Last modified June 10, 2008. Version 1.
Checksum: D62065E42FC111E1

FASTA76683,591
        10         20         30         40         50         60 
MSTVNAKGAK PATDANGQSL NPEEPSEALR EEYAQLSDRV REARAAYYVH DQPVISDAEY 

        70         80         90        100        110        120 
DQLYRSLEEF EALHPELKAN DSPTQEVGGE VGAAFSPVKH LEKMYSLEDV FSTDELVAWL 

       130        140        150        160        170        180 
ERAQKQVAEL PGAPEVAWLS EVKIDGLAVN LLYRDGVLVR AATRGDGTTG EDITHNVATI 

       190        200        210        220        230        240 
KTIPQRLSGE NLPEEVEVRG EVFISSKDFR TLNEAMVEEG RAPFANPRNA AAGSLRQKDP 

       250        260        270        280        290        300 
QVTARRPLSM FVHGIGYVRG VDLETQSEAY EILRGWGLPV SPYSRVLSTV AEVLEFIAEF 

       310        320        330        340        350        360 
GDKRHALLHE IDGIVVKVDD RRTQFRLGYT SRVPRWAVAY KYPPEEVNTT LVDILVNVGR 

       370        380        390        400        410        420 
TGRVTPFGLM DPVRVAGSTV EMATLHNQDM VRAKGVLIGD TVVLRKAGDV IPEIVGPVVA 

       430        440        450        460        470        480 
LRDGSEREFV MPAECPSCGT PLRPAKEGDV DIRCPNAETC PSQLKERVNH AAGRGAFDIE 

       490        500        510        520        530        540 
ALGEEAARAL TQPVPLDAPD GTELSVPPLR NEAGLFDLTP EDLRDVMVWR DARRTVTDEE 

       550        560        570        580        590        600 
TGEKVQRVTP ELVPYFWTKP TKARPSVPSK TTEQMFAQLE QAKDTELWRV LVALSIRHVG 

       610        620        630        640        650        660 
PTAARSLATS LRSMDAIRQA DPETLAGTDG VGPVIAQAVQ EFFAEPWRRR VVEQWAAAGV 

       670        680        690        700        710        720 
RMEEEVDEST PRTLEGVTVV VTGSLEGYSR DSAKEAILKR GGKASGSVSK KTHFLVAGDN 

       730        740        750        760 
AGTKLDKAES LGVPVLDEAG FEQLLAQGPE AFGDRADAAD QPAAGE

« Hide

References

[1]"Complete genome sequence of the soil actinomycete Kocuria rhizophila."
Takarada H., Sekine M., Kosugi H., Matsuo Y., Fujisawa T., Omata S., Kishi E., Shimizu A., Tsukatani N., Tanikawa S., Fujita N., Harayama S.
J. Bacteriol. 190:4139-4146(2008) [PubMed: 18408034] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: ATCC 9341 / DSM 348 / NBRC 103217 / DC2201.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ		AP009152 Genomic DNA. Translation: BAG30020.1.
RefSeqYP_001855526.1. NC_010617.1.

3D structure databases

ProteinModelPortalB2GL64.
ModBaseSearch...

Protein-protein interaction databases

STRINGB2GL64.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

GeneID6239926.
GenomeReviewsGene locus KRH_16730 in contig AP009152_GR.
KEGGkrh:KRH_16730.
PATRIC22183656. VBIKocRhi5258_1673.

Organism-specific databases

CMRSearch...

Phylogenomic databases

HOGENOMHBG620317.
OMAENVRTIR.
ProtClustDBCLSK959647.

Family and domain databases

HAMAPMF_01588. DNA_ligase_A.
[Tree]
InterProIPR001357. BRCT.
IPR018239. DNA_ligase_AS.
IPR004150. DNA_ligase_OB.
IPR001679. DNAligase.
IPR013839. DNAligase_adenylation.
IPR013840. DNAligase_N.
IPR012340. NA-bd_OB-fold.
IPR016027. NA-bd_OB-fold-like.
IPR010994. RuvA_2-like.
IPR004149. Znf_DNAligase_C4.
[Graphical view]
Gene3DG3DSA:2.40.50.140. OB_NA_bd_sub. 1 hit.
KOK01972.
PfamPF00533. BRCT. 1 hit.
PF01653. DNA_ligase_aden. 1 hit.
PF03120. DNA_ligase_OB. 1 hit.
PF03119. DNA_ligase_ZBD. 1 hit.
[Graphical view]
PIRSFPIRSF001604. LigA. 1 hit.
SMARTSM00292. BRCT. 1 hit.
SM00532. LIGANc. 1 hit.
[Graphical view]
SUPFAMSSF52113. BRCT. 1 hit.
SSF50249. Nucleic_acid_OB. 1 hit.
SSF47781. RuvA_2_like. 1 hit.
TIGRFAMsTIGR00575. Dnlj. 1 hit.
PROSITEPS50172. BRCT. 1 hit.
PS01055. DNA_LIGASE_N1. 1 hit.
PS01056. DNA_LIGASE_N2. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry nameDNLJ_KOCRD
AccessionPrimary (citable) accession number: B2GL64
Entry history
Integrated into UniProtKB/Swiss-Prot: July 28, 2009
Last sequence update: June 10, 2008
Last modified: January 25, 2012
This is version 31 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

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