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Q2NJF5 (DNLJ_AYWBP) Reviewed, UniProtKB/Swiss-Prot

Last modified January 25, 2012. Version 45. 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:AYWB_321
OrganismAster yellows witches'-broom phytoplasma (strain AYWB) [Complete proteome] [HAMAP]
Taxonomic identifier322098 [NCBI]
Taxonomic lineageBacteria › Tenericutes › Mollicutes › Acholeplasmatales › Acholeplasmataceae › Candidatus Phytoplasma › Candidatus Phytoplasma asteris

Protein attributes

Sequence length671 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 binding

Inferred from electronic annotation. Source: InterPro

DNA 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 – 671671DNA ligase HAMAP MF_01588
PRO_0000313118

Regions

Domain588 – 67184BRCT
Nucleotide binding35 – 395NAD By similarity
Nucleotide binding84 – 852NAD By similarity

Sites

Active site1151N6-AMP-lysine intermediate By similarity
Metal binding4031Zinc By similarity
Metal binding4061Zinc By similarity
Metal binding4211Zinc By similarity
Metal binding4261Zinc By similarity
Binding site1131NAD By similarity
Binding site1361NAD By similarity
Binding site1701NAD By similarity
Binding site2851NAD By similarity
Binding site3091NAD By similarity

Sequences

Sequence LengthMass (Da)Tools
Q2NJF5 [UniParc].

Last modified February 7, 2006. Version 1.
Checksum: 01FD219871950168

FASTA67176,062
        10         20         30         40         50         60 
MQNCDPIKQK IKSLVKQLNK ANYQYYNLSD PDLSDQQYDA LIKELINLEN HYPQFKLPYS 

        70         80         90        100        110        120 
PTLKIGGFVE KKFSTIKHKT PMMSLANVFN IEELKAFYDR IVKKIPTFSL LTELKIDGVA 

       130        140        150        160        170        180 
ISLKYQKGIL VRALTRGNGI WGEDVTKNAQ TIKTIPLRLN EDLDLEVRGE IYLSHPDFEK 

       190        200        210        220        230        240 
LNAQRKQENK PLFSNPRNAA SGTLRQLNSA VVAKRNLSIF VYGIADPYLT KPTQKETLVF 

       250        260        270        280        290        300 
LTALGFATNP HHYFVSNFEN LLSVIEKYKS IKEQLTYDTD GIVIKINELV FHSLIGATAK 

       310        320        330        340        350        360 
APRWATAYKF ATITSQSIIQ NIIFQVGRTG VITPVCEIMP VMVDGSLVSK VFLHNYDYIC 

       370        380        390        400        410        420 
KKDIRIKDHV IVHKAGSVIP EILEVIKSKR TDLQKPTLMI EKCPSCKTIL EKQPGGIDYF 

       430        440        450        460        470        480 
CLNPNCREQK IQKLIHFVSK NAMDINVLGE QTIITFFDKN LITKPSDLYL LKNHQHILQE 

       490        500        510        520        530        540 
ISGFGAKKIT NILDAIEASK QKGFEDVLFA LGIKHIGKKV SQVLAKYFQT IENLQQSTSD 

       550        560        570        580        590        600 
TITQIREIGI KIAQSIQQYF SNSCNLEEVT KLKKLGVSFQ STNSQKPTTQ NIFTNKKIVL 

       610        620        630        640        650        660 
TGTLQKYSRL QIQQILEQMG AIITNSLSLK TNYLIVGINA GSKLTKAQKL QIPIIEEKEL 

       670 
QQIIENNQIK S

« Hide

References

[1]"Living with genome instability: the adaptation of phytoplasmas to diverse environments of their insect and plant hosts."
Bai X., Zhang J., Ewing A., Miller S.A., Jancso Radek A., Shevchenko D.V., Tsukerman K., Walunas T., Lapidus A., Campbell J.W., Hogenhout S.A.
J. Bacteriol. 188:3682-3696(2006) [PubMed: 16672622] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: AYWB.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ		CP000061 Genomic DNA. Translation: ABC65438.1.
RefSeqYP_456517.1. NC_007716.1.

3D structure databases

ProteinModelPortalQ2NJF5.
ModBaseSearch...

Protein-protein interaction databases

STRINGQ2NJF5.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

GeneID3865482.
GenomeReviewsGene locus AYWB_321 in contig CP000061_GR.
KEGGayw:AYWB_321.
PATRIC21004658. VBIAstYel136969_0371.

Organism-specific databases

CMRSearch...

Phylogenomic databases

eggNOGCOG0272.
HOGENOMHBG620317.
OMAENVRTIR.
PhylomeDBQ2NJF5.
ProtClustDBCLSK343750.

Enzyme and pathway databases

BioCycAYEL322098:AYWB_321-MONOMER.

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.
IPR003583. Hlx-hairpin-Hlx_DNA-bd_motif.
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.
SM00278. HhH1. 3 hits.
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. False negative.
[Graphical view]
ProtoNetSearch...

Entry information

Entry nameDNLJ_AYWBP
AccessionPrimary (citable) accession number: Q2NJF5
Entry history
Integrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: February 7, 2006
Last modified: January 25, 2012
This is version 45 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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