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A6TLU4 (DNLJ_ALKMQ) Reviewed, UniProtKB/Swiss-Prot

Last modified November 16, 2011. Version 32. 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:Amet_0942
OrganismAlkaliphilus metalliredigens (strain QYMF) [Complete proteome] [HAMAP]
Taxonomic identifier293826 [NCBI]
Taxonomic lineageBacteria › Firmicutes › Clostridia › Clostridiales › Clostridiaceae › Alkaliphilus

Protein attributes

Sequence length660 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 – 660660DNA ligase HAMAP MF_01588
PRO_0000340324

Regions

Domain577 – 66084BRCT
Nucleotide binding31 – 355NAD By similarity
Nucleotide binding79 – 802NAD By similarity

Sites

Active site1131N6-AMP-lysine intermediate By similarity
Metal binding3971Zinc By similarity
Metal binding4001Zinc By similarity
Metal binding4131Zinc By similarity
Metal binding4191Zinc By similarity
Binding site1111NAD By similarity
Binding site1341NAD By similarity
Binding site1681NAD By similarity
Binding site2801NAD By similarity
Binding site3041NAD By similarity

Sequences

Sequence LengthMass (Da)Tools
A6TLU4 [UniParc].

Last modified August 21, 2007. Version 1.
Checksum: 8EC7E8AECBFC0C8F

FASTA66074,291
        10         20         30         40         50         60 
MDQMKEMEQL VKQLNEYSYK YYVLDQPIVS DKEYDSLYDQ LIELEEKTGH VLLDSPTQRV 

        70         80         90        100        110        120 
GGEPLKKFQS HQHVALLWSL DKAKTAEELV AWEQRIKKKL ESNHEIEYIV EYKFDGLTLN 

       130        140        150        160        170        180 
LTYENGELVQ AATRGNGVVG ESIIEQVKTI QAIPLGVDFN NKMEIQGEGL MAISTLAQYN 

       190        200        210        220        230        240 
KTAKEPLKNP RNAAAGALRN LDPKVTAKRK LGAFCYSIGY YEGMEFETHI QMIDFLKKNR 

       250        260        270        280        290        300 
FPVSNYIKSC KGIDQVIEQI REVEAGMKEL DYLTDGIVIK VNDLRTREIL GYTQKFPRWA 

       310        320        330        340        350        360 
IAYKFEAQEV TTKLEAVLWQ VGRTGKLTPA AQLEPVEIAG VTVSRATLNN WEDIQRKKVK 

       370        380        390        400        410        420 
VGCQVWLRRS GDVIPEIMGA IEETCEEAVE IEKPQHCPAC DSEIVHRGVH IFCPNSLSCK 

       430        440        450        460        470        480 
PQLVSRIVHY ASRDAMDIEG FSEKTAEQLF EALGLKNIAA LYELKYEDLI QLERFGDKKA 

       490        500        510        520        530        540 
KNLLDAIEES KTCKLDAFIY ALGIPNVGRK TAADLANYFG DLEKIQRANY DELVVLPDIG 

       550        560        570        580        590        600 
GIVAQSIVGF FEDEKIIKSI ELLLAEGIKP QHKMKNRQES IFSGKTVVVT GTLENYGRKE 

       610        620        630        640        650        660 
IQTLLEEQGA KVSGSISKNT DFVIAGDNAG SKLKKAQEIL ESGVETNLQI LDEAAFEALL

« Hide

References

[1]"Complete sequence of Alkaliphilus metalliredigens QYMF."
Copeland A., Lucas S., Lapidus A., Barry K., Detter J.C., Glavina del Rio T., Hammon N., Israni S., Dalin E., Tice H., Pitluck S., Chertkov O., Brettin T., Bruce D., Han C., Schmutz J., Larimer F., Land M. expand/collapse author list , Hauser L., Kyrpides N., Mikhailova N., Ye Q., Zhou J., Fields M., Richardson P.
Submitted (JUN-2007) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: QYMF.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ		CP000724 Genomic DNA. Translation: ABR47162.1.
RefSeqYP_001318821.1. NC_009633.1.

3D structure databases

ProteinModelPortalA6TLU4.
ModBaseSearch...

Protein-protein interaction databases

STRINGA6TLU4.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

GeneID5310985.
GenomeReviewsGene locus Amet_0942 in contig CP000724_GR.
KEGGamt:Amet_0942.

Organism-specific databases

CMRSearch...

Phylogenomic databases

eggNOGCOG0272.
HOGENOMHBG620317.
OMAENVRTIR.
ProtClustDBPRK07956.

Enzyme and pathway databases

BioCycAMET293826:AMET_0942-MONOMER.

Family and domain databases

HAMAPMF_01588. DNA_ligase_A.
[Tree]
InterProIPR001357. BRCT.
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. False negative.
PS01056. DNA_LIGASE_N2. False negative.
[Graphical view]
ProtoNetSearch...

Entry information

Entry nameDNLJ_ALKMQ
AccessionPrimary (citable) accession number: A6TLU4
Entry history
Integrated into UniProtKB/Swiss-Prot: June 10, 2008
Last sequence update: August 21, 2007
Last modified: November 16, 2011
This is version 32 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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