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Q5NYU3 (DNLJ_AROAE) Reviewed, UniProtKB/Swiss-Prot

Last modified January 25, 2012. Version 54. 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:AZOSEA36460
ORF Names:ebA6380
OrganismAromatoleum aromaticum (strain EbN1) (Azoarcus sp. (strain EbN1)) [Complete proteome] [HAMAP]
Taxonomic identifier76114 [NCBI]
Taxonomic lineageBacteria › Proteobacteria › Betaproteobacteria › Rhodocyclales › Rhodocyclaceae › Aromatoleum

Protein attributes

Sequence length681 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 – 681681DNA ligase HAMAP MF_01588
PRO_0000313120

Regions

Domain601 – 68181BRCT
Nucleotide binding35 – 395NAD By similarity
Nucleotide binding84 – 852NAD By similarity

Sites

Active site1231N6-AMP-lysine intermediate By similarity
Metal binding4181Zinc By similarity
Metal binding4211Zinc By similarity
Metal binding4361Zinc By similarity
Metal binding4421Zinc By similarity
Binding site1211NAD By similarity
Binding site1441NAD By similarity
Binding site1801NAD By similarity
Binding site3001NAD By similarity
Binding site3241NAD By similarity

Sequences

Sequence LengthMass (Da)Tools
Q5NYU3 [UniParc].

Last modified January 4, 2005. Version 1.
Checksum: D62CEC8D780047C7

FASTA68173,901
        10         20         30         40         50         60 
MSASPEDFER AAQLRRELEA HDHAYYVLDA PTVPDAEYDR LFRELDALER RHPELLVPDS 

        70         80         90        100        110        120 
PTRRVGGAPV PGLVPVRHAV PMLSIRTETD TTSGGVIAFD TRVRNALELG PHAPPVEYLG 

       130        140        150        160        170        180 
ELKFDGLAIS LRYENGMLVR AATRGDGYTG EDVTHSVRTI RQIPLRLPGR PPALIEVRGE 

       190        200        210        220        230        240 
IYMRRDAFER LNARQSETGG KVFVNPRNAA AGAVRQLDAR IAARRPLSFF AYGFGEIGES 

       250        260        270        280        290        300 
GGWNMPATQG EMLDALDALG IPVCEHRVVA SGPDGLIAFH DRIAAARDSL PYDIDGVVYK 

       310        320        330        340        350        360 
VNRFDLQRRL GFVTREPRWA VAHKYPAQEE ITELVDIEIQ VGRTGALTPV ARLKPVFVGG 

       370        380        390        400        410        420 
VTVTNATLHN EEEIQRKGLL IGDQVIVRRA GDVIPQIVAP VVERRNGSER PFVMPQTCPV 

       430        440        450        460        470        480 
CGSHAEKQPD EAVTRCSGGL FCPAQRKQAL LHFAGRRAMD IEGLGDKLVD QLVDGGIVST 

       490        500        510        520        530        540 
PADLYRLGLV KLANLPRMAD KSAANLLAAI EKSRHATLAR FIFALGIRNV GEATARELAR 

       550        560        570        580        590        600 
HFGSLDALMD ADIERLQQVA DVGPIVAHSI AGFFAEMHNR EVIEQLRAAG VHWDEGVPAV 

       610        620        630        640        650        660 
AADGPASGKT FVLTGALPTM SRDDAKALIE SHGGKVSGSV SKKTDYVVAG AEAGSKLAKA 

       670        680 
QELGVAILDE DGLRRLLEQP A

« Hide

References

[1]"The genome sequence of an anaerobic aromatic-degrading denitrifying bacterium, strain EbN1."
Rabus R., Kube M., Heider J., Beck A., Heitmann K., Widdel F., Reinhardt R.
Arch. Microbiol. 183:27-36(2005) [PubMed: 15551059] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: EbN1.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ		CR555306 Genomic DNA. Translation: CAI09771.1.
RefSeqYP_160672.1. NC_006513.1.

3D structure databases

HSSPHSSP built from PDB template 1L7B based on UniProtKB P26996.
ProteinModelPortalQ5NYU3.
SMRQ5NYU3. Positions 8-595.
ModBaseSearch...

Protein-protein interaction databases

STRINGQ5NYU3.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

GeneID3182930.
GenomeReviewsGene locus AZOSEA36460 in contig CR555306_GR.
KEGGeba:ebA6380.
NMPDRfig|76114.4.peg.3651.
PATRIC20973499. VBIAroAro98752_3667.

Organism-specific databases

CMRSearch...

Phylogenomic databases

eggNOGCOG0272.
HOGENOMHBG620317.
OMAENVRTIR.
ProtClustDBCLSK767052.

Enzyme and pathway databases

BioCycASP76114:EBA6380-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. 4 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. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry nameDNLJ_AROAE
AccessionPrimary (citable) accession number: Q5NYU3
Entry history
Integrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: January 4, 2005
Last modified: January 25, 2012
This is version 54 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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