Reviewed, UniProtKB/Swiss-Prot Q1BHI7 (DNLJ_BURCA)

Names and origin

Protein names

Recommended name:
    DNA ligase
    EC=6.5.1.2
Alternative name(s):
    Polydeoxyribonucleotide synthase [NAD+]

Gene names

Name:	ligA
Ordered Locus Names:	Bcen_6053

Organism

Burkholderia cenocepacia (strain AU 1054) [Complete proteome] [HAMAP]

Taxonomic identifier

331271 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Betaproteobacteria › Burkholderiales › Burkholderiaceae › Burkholderia › Burkholderia cepacia complex

Protein attributes

Sequence length	691 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
Protein existence	Inferred 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.
Catalytic activity	NAD+ + (deoxyribonucleotide)(n) + (deoxyribonucleotide)(m) = AMP + nicotinamide nucleotide + (deoxyribonucleotide)(n+m). HAMAP MF_01588
Cofactor	Magnesium or manganese By similarity.
Sequence similarities	Belongs to the NAD-dependent DNA ligase family. LigA subfamily. Contains 1 BRCT domain.

Ontologies

Keywords
Biological process	DNA damage DNA repair DNA replication
Ligand	Magnesium Manganese Metal-binding NAD Zinc
Molecular function	Ligase
Technical term	Complete proteome
Gene Ontology (GO)
Biological process	DNA repair Inferred from electronic annotation. Source: UniProtKB-KW DNA replication Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	intracellular Inferred from electronic annotation. Source: InterPro
Molecular function	DNA binding Inferred from electronic annotation. Source: InterPro DNA ligase (NAD+) activity Inferred from electronic annotation. Source: HAMAP magnesium ion binding Inferred from electronic annotation. Source: UniProtKB-KW manganese ion binding Inferred from electronic annotation. Source: UniProtKB-KW zinc ion binding Inferred from electronic annotation. Source: UniProtKB-KW
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 691	691	DNA ligase HAMAP MF_01588		PRO_0000313158
Regions
	Domain	610 – 691	82	BRCT
	Nucleotide binding	41 – 45	5	NAD By similarity
	Nucleotide binding	90 – 91	2	NAD By similarity
Sites
	Active site	132	1	N6-AMP-lysine intermediate By similarity
	Metal binding	425	1	Zinc By similarity
	Metal binding	428	1	Zinc By similarity
	Metal binding	443	1	Zinc By similarity
	Metal binding	449	1	Zinc By similarity
	Binding site	130	1	NAD By similarity
	Binding site	153	1	NAD By similarity
	Binding site	190	1	NAD By similarity
	Binding site	307	1	NAD By similarity
	Binding site	331	1	NAD By similarity

Sequences

	Sequence		Length	Mass (Da)
	Q1BHI7-1 [UniParc]. Last modified January 15, 2008. Version 2. Checksum: 346CD3AF69025F9F	FASTA	691	75,478
	10 20 30 40 50 60 MARTQAEPPA SQPDARAAWL RDQLERANYA YYVLDQPDLP DAEYDRLFRE LQQLETDHPE 70 80 90 100 110 120 LVTPDSPTQR VGGEAAGGFT PVVHDAPMLS LNNGFADEDI VAFDKRVADA LAKTTDLAGS 130 140 150 160 170 180 VTDPVEYACE LKFDGLAISL RYEQGVFVQA ATRGDGTTGE DVTENVRTIR SIPLKLKGKH 190 200 210 220 230 240 VPAVLDVRGE VLMFKRDFAR LNERQRAAEQ REFANPRNAA AGSLRQLDSK ITAQRPLSFF 250 260 270 280 290 300 AYGIGVLDGM PMPDTHSALL DWYESLGLPV NRERAVVHGA EGLLDFFRKV GEKRESLPYD 310 320 330 340 350 360 IDGVVYKVNR RDEQERLGFV SRAPRFALAH KFPAQEALTK LVAIDVQVGR TGAITPVARL 370 380 390 400 410 420 EPVFVGGATV TNATLHNEDE VRRKDIRIGD TVIVRRAGDV IPEVVGALLD RRPADAAEFV 430 440 450 460 470 480 MPTECPVCGS KIERLPDEAI ARCTGGLFCP AQRKQALWHF AQRRALDIDG LGEKIIDQLV 490 500 510 520 530 540 ELNLVRTPAD LFNLGFATLA ELDRFAEKSA QNLIDSLEKA KHTTLARFIY GLGIRHVGES 550 560 570 580 590 600 TAKDLAKHFG SLTPIMDASI EELLEVNDVG PIVAESLHQF FAEEHNRTVI EQLRAPGKVT 610 620 630 640 650 660 WPEGPPAPKA PQGVLAGKTV VLTGTLPNLT RDAAKEMLEA AGAKVAGSVS KKTDYVVAGA 670 680 690 EAGSKLAKAE ELGIPVLDED GLHQLLEGNT P

References

[1]

"Complete sequence of chromosome 3 of Burkholderia cenocepacia AU 1054." 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., Chain P., Malfatti S., Shin M., Vergez L., Schmutz J., Larimer F., Land M. , Hauser L., Kyrpides N., Lykidis A., LiPuma J.J., Konstantinidis K., Tiedje J.M., Richardson P. Submitted (MAY-2006) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].

Cross-references

Sequence databases
EMBLGenBankDDBJ	CP000380 Genomic DNA. Translation: ABF80918.1. Different initiation.
RefSeq	YP_625891.1.
3D structure databases
ModBase	Search...
Protein-protein interaction databases
STRING	Q1BHI7.
Genome annotation databases
GeneID	4097104.
GenomeReviews	Gene locus Bcen_6053 in contig CP000380_GR.
KEGG	bcn:Bcen_6053.
Organism-specific databases
CMR	Search...
Phylogenomic databases
HOGENOM	Q1BHI7.
Enzyme and pathway databases
BioCyc	BCEN331271:BCEN_6053-MON.
Family and domain databases
HAMAP	MF_01588. [Tree]
InterPro	IPR001357. BRCT. IPR018239. DNA_ligase_AS. IPR004150. DNA_ligase_OB. IPR001679. DNAligase. IPR013839. DNAligase_adenylation. IPR013840. DNAligase_N. IPR000445. HhH_motif. IPR003583. Hlx-hairpin-Hlx_DNA-bd_motif. IPR012340. NA-bd_OB-fold. IPR004149. Znf_DNAligase_C4. [Graphical view]
Gene3D	G3DSA:2.40.50.140. OB_NA_bd_sub. 1 hit.
Pfam	PF00533. BRCT. 1 hit. PF01653. DNA_ligase_aden. 1 hit. PF03120. DNA_ligase_OB. 1 hit. PF03119. DNA_ligase_ZBD. 1 hit. PF00633. HHH. 1 hit. [Graphical view]
PIRSF	PIRSF001604. LigA. 1 hit.
ProDom	PD003944. DNAligase. 1 hit. [Graphical view] [Entries sharing at least one domain]
SMART	SM00292. BRCT. 1 hit. SM00278. HhH1. 3 hits. SM00532. LIGANc. 1 hit. [Graphical view]
TIGRFAMs	TIGR00575. dnlj. 1 hit.
PROSITE	PS50172. BRCT. 1 hit. PS01055. DNA_LIGASE_N1. 1 hit. PS01056. DNA_LIGASE_N2. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

DNLJ_BURCA

Accession

Primary (citable) accession number: Q1BHI7

Entry history

Integrated into UniProtKB/Swiss-Prot:	January 15, 2008
Last sequence update:	January 15, 2008
Last modified:	October 13, 2009
This is version 28 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HAMAP (High-quality Automated and Manual Annotation of microbial Proteomes)