Reviewed, UniProtKB/Swiss-Prot Q9YD18 (DNLI_AERPE)

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:	APE_1094.1

Organism

Aeropyrum pernix [Complete proteome] [HAMAP]

Taxonomic identifier

56636 [NCBI]

Taxonomic lineage

Archaea › Crenarchaeota › Thermoprotei › Desulfurococcales › Desulfurococcaceae › Aeropyrum

Protein attributes

Sequence length	602 AA.
Sequence status	Complete.
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. HAMAP MF_00407
Catalytic activity	ATP + (deoxyribonucleotide)(n) + (deoxyribonucleotide)(m) = AMP + diphosphate + (deoxyribonucleotide)(n+m). HAMAP MF_00407
Cofactor	Divalent metal cations By similarity. HAMAP MF_00407
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 – 602	602	DNA ligase HAMAP MF_00407		PRO_0000059600
Sites
	Active site	264	1	N6-AMP-lysine intermediate By similarity
	Binding site	262	1	ATP By similarity
	Binding site	269	1	ATP By similarity
	Binding site	284	1	ATP By similarity
	Binding site	314	1	ATP By similarity
	Binding site	354	1	ATP By similarity
	Binding site	431	1	ATP By similarity
	Binding site	437	1	ATP By similarity

Sequences

	Sequence		Length	Mass (Da)
	Q9YD18-1 [UniParc]. Last modified June 20, 2001. Version 2. Checksum: AD1DC7521FAFD814	FASTA	602	67,748
	10 20 30 40 50 60 MPFKPVAEAF ASMERITSRT QLTLLLTRLF KSTPPGAIGI VVYLIQGKLG PDWKGLPELG 70 80 90 100 110 120 VGEKLLVKAI ALAYKATEER VERLYKSVGD LGSVAERLSR EYRSRAARAV TLEAFMAGGG 130 140 150 160 170 180 EALTVRRVYN TLYRIAMAQG EGSRDIKLRL LAGLLADAEP VEAKYIVRFV EGRLRVGVGD 190 200 210 220 230 240 ATVLDALAMA FGGGAHARPV IERAYNLRAD LGYIAEVVAR EGVDALRGVK PQVGVPIRPM 250 260 270 280 290 300 LAERGRDPAE ILRKVGGRAV VEYKYDGERA QIHKKDGEVY IYSRRLENIT RMFPDVVEMA 310 320 330 340 350 360 RKGLKAGEAI VEGEIVAVDP DNYEIQPFQV LMQRKRKHDI HRVMREVPVA VFLFDALYVD 370 380 390 400 410 420 GEDLTSKPLP ERRRRLKEIV VETPLWRLAE SIETSDPEEL WTFFLKAIEE GAEGVMVKAV 430 440 450 460 470 480 HRDSVYTAGV RGWLWVKLKR DYKSEMMDTV DLVVVGAFYG RGKRGGKLSS LLMAAYDPDR 490 500 510 520 530 540 DVFPTVCKVA TGFTDEELDR MNEMLKKHII PRKHPRVESR IEPDVWVEPA LVAEILGAEL 550 560 570 580 590 600 TLSPMHTCCL NTVRPGVGIS IRFPRFIRWR DDKSPEDATT THELLEMYKR QLRRVEEPAE QV

References

[1]

"Complete genome sequence of an aerobic hyper-thermophilic crenarchaeon, Aeropyrum pernix K1." Kawarabayasi Y., Hino Y., Horikawa H., Yamazaki S., Haikawa Y., Jin-no K., Takahashi M., Sekine M., Baba S., Ankai A., Kosugi H., Hosoyama A., Fukui S., Nagai Y., Nishijima K., Nakazawa H., Takamiya M., Masuda S. , Funahashi T., Tanaka T., Kudoh Y., Yamazaki J., Kushida N., Oguchi A., Aoki K., Kubota K., Nakamura Y., Nomura N., Sako Y., Kikuchi H. DNA Res. 6:83-101(1999) [PubMed: 10382966] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: K1.

Cross-references

Sequence databases
EMBL GenBank DDBJ	BA000002 Genomic DNA. Translation: BAA80079.2.
PIR	G72709.
RefSeq	NP_147713.2.
3D structure databases
SMR	Q9YD18. Positions 1-594.
ModBase	Search...
Genome annotation databases
GeneID	1445787.
GenomeReviews	Gene locus APE_1094.1 in contig BA000002_GR.
KEGG	ape:APE_1094.1.
NMPDR	fig|272557.1.peg.821.
Organism-specific databases
CMR	Search...
Phylogenomic databases
HOGENOM	HBG570821.
OMA	RNWLKLK.
Enzyme and pathway databases
BioCyc	APER272557:APE1094-MONOMER.
BRENDA	6.5.1.1. 256344.
Family and domain databases
HAMAP	MF_00407. DNA_ligase. [Tree]
InterPro	IPR000977. DNA_ligase. IPR012309. DNA_ligase_A_C. IPR012310. DNA_ligase_A_M. 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. [Graphical view]
TIGRFAMs	TIGR00574. dnl1. 1 hit.
PROSITE	PS00697. DNA_LIGASE_A1. 1 hit. PS00333. DNA_LIGASE_A2. 1 hit. PS50160. DNA_LIGASE_A3. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

DNLI_AERPE

Accession

Primary (citable) accession number: Q9YD18

Entry history

Integrated into UniProtKB/Swiss-Prot:	June 20, 2001
Last sequence update:	June 20, 2001
Last modified:	February 9, 2010
This is version 62 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)