Reviewed, UniProtKB/Swiss-Prot Q5V4R0 (DNLI_HALMA)

Names and origin

Protein names

Recommended name:
    DNA ligase
    EC=6.5.1.1
Alternative name(s):
    Polydeoxyribonucleotide synthase [ATP]

Gene names

Name:	lig
Ordered Locus Names:	rrnAC0463

Organism

Haloarcula marismortui (Halobacterium marismortui) [Complete proteome] [HAMAP]

Taxonomic identifier

2238 [NCBI]

Taxonomic lineage

Archaea › Euryarchaeota › Halobacteria › Halobacteriales › Halobacteriaceae › Haloarcula

Protein attributes

Sequence length	554 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
Protein existence	Inferred from homology.

General annotation (Comments)

Function	DNA ligase that seals nicks in double-stranded DNA during DNA replication, DNA recombination and DNA repair By similarity.
Catalytic activity	ATP + (deoxyribonucleotide)(n) + (deoxyribonucleotide)(m) = AMP + diphosphate + (deoxyribonucleotide)(n+m). HAMAP MF_00407
Cofactor	Divalent metal cations By similarity.
Sequence similarities	Belongs to the ATP-dependent DNA ligase family.

Ontologies

Keywords
Biological process	Cell cycle Cell division DNA damage DNA recombination DNA repair DNA replication
Ligand	ATP-binding Metal-binding Nucleotide-binding
Molecular function	Ligase
Technical term	Complete proteome
Gene Ontology (GO)
Biological process	DNA recombination Inferred from electronic annotation. Source: HAMAP DNA repair Inferred from electronic annotation. Source: HAMAP DNA replication Inferred from electronic annotation. Source: HAMAP cell cycle Inferred from electronic annotation. Source: UniProtKB-KW cell division Inferred from electronic annotation. Source: UniProtKB-KW
Molecular function	ATP binding Inferred from electronic annotation. Source: HAMAP DNA binding Inferred from electronic annotation. Source: InterPro DNA ligase (ATP) activity Inferred from electronic annotation. Source: HAMAP metal 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 – 554	554	DNA ligase HAMAP MF_00407		PRO_1000049866
Sites
	Active site	255	1	N6-AMP-lysine intermediate By similarity
	Binding site	253	1	ATP By similarity
	Binding site	260	1	ATP By similarity
	Binding site	275	1	ATP By similarity
	Binding site	304	1	ATP By similarity
	Binding site	344	1	ATP By similarity
	Binding site	418	1	ATP By similarity
	Binding site	424	1	ATP By similarity

Sequences

	Sequence		Length	Mass (Da)
	Q5V4R0-1 [UniParc]. Last modified December 7, 2004. Version 1. Checksum: 6DA9C5DCA84BCF3C	FASTA	554	59,594
	10 20 30 40 50 60 MEFAAFADRA EAIESESADT AITEAVTDLF RASGSDLSTL ARFVQGRVFP AYESRTLDIG 70 80 90 100 110 120 PRLCYEAIAR AAGQNVSADD VEQRLADLGE IGAVAASYDL GGQQGLAAFG AGGGGDDALT 130 140 150 160 170 180 VAELDDELRN LAAVDGSGSQ GTKVDILFGL FSRCSSTEAG YLARLVLSEM RIGVGEGTVR 190 200 210 220 230 240 DAAAAAFDVP VEAVERAVQV SNDYGMVAEV ARDEGESGLA TVTLEIGRPV QAMLAQAGTV 250 260 270 280 290 300 AGALEDWDRA AVEWKYDGAR VQVHFDGEDA RLFSRNMEEV TDPLPEVVET VESTLDAPAI 310 320 330 340 350 360 LDGEVVAVDD GGDPLPFQEV LRRFRRKHDV AAAREDVAVR LHAFDCLHAA GEDLLDAALE 370 380 390 400 410 420 TRHDRLESLF PADSDVFSQM WLSDDAEEIE SLEAEALAAG QEGIMLKDPT AAYSPGKRGK 430 440 450 460 470 480 HWRKRKPDVE TLDCVVTGAE WGEGRRANVL GSFELSVRTD DGYATVGNVA TGITDEELDD 490 500 510 520 530 540 LTERFEPYIR SEDGRDVVLD PAVVFEVGYE EIQASQSYAS GYALRFPRFL SVREDKTPDS 550 ADSLARVERL AESQ

References

[1]

"Genome sequence of Haloarcula marismortui: a halophilic archaeon from the Dead Sea." Baliga N.S., Bonneau R., Facciotti M.T., Pan M., Glusman G., Deutsch E.W., Shannon P., Chiu Y., Weng R.S., Gan R.R., Hung P., Date S.V., Marcotte E., Hood L., Ng W.V. Genome Res. 14:2221-2234(2004) [PubMed: 15520287] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 43049 / DSM 3752 / JCM 8966.

Cross-references

Sequence databases
EMBLGenBankDDBJ	AY596297 Genomic DNA. Translation: AAV45492.1.
RefSeq	YP_135198.1.
3D structure databases
ModBase	Search...
Genome annotation databases
GeneID	3130622.
GenomeReviews	Gene locus rrnAC0463 in contig AY596297_GR.
KEGG	hma:rrnAC0463.
NMPDR	fig|272569.1.peg.457.
Organism-specific databases
CMR	Search...
Phylogenomic databases
HOGENOM	Q5V4R0.
OMA	Q5V4R0. SNLHLGA.
Enzyme and pathway databases
BioCyc	HMAR272569:RRNAC0463-MON.
BRENDA	6.5.1.1. 88.
Family and domain databases
HAMAP	MF_00407. [Tree]
InterPro	IPR000977. DNA_ligase. IPR012309. DNA_ligase_A_C. IPR012310. DNA_ligase_A_M. IPR012308. DNA_ligase_A_N. IPR016059. DNA_ligase_CS. IPR012340. NA-bd_OB-fold. [Graphical view]
Gene3D	G3DSA:2.40.50.140. OB_NA_bd_sub. 1 hit.
Pfam	PF04679. DNA_ligase_A_C. 1 hit. PF01068. DNA_ligase_A_M. 1 hit. PF04675. DNA_ligase_A_N. 1 hit. [Graphical view]
TIGRFAMs	TIGR00574. dnl1. 1 hit.
PROSITE	PS00697. DNA_LIGASE_A1. 1 hit. PS00333. DNA_LIGASE_A2. False negative. PS50160. DNA_LIGASE_A3. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

DNLI_HALMA

Accession

Primary (citable) accession number: Q5V4R0

Entry history

Integrated into UniProtKB/Swiss-Prot:	January 15, 2008
Last sequence update:	December 7, 2004
Last modified:	June 16, 2009
This is version 39 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

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