A2SR38 (DNLI_METLZ) Reviewed, UniProtKB/Swiss-Prot

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:	Mlab_0620

Organism

Methanocorpusculum labreanum (strain ATCC 43576 / DSM 4855 / Z) [Complete proteome] [HAMAP]

Taxonomic identifier

410358 [NCBI]

Taxonomic lineage

Archaea › Euryarchaeota › Methanomicrobia › Methanomicrobiales › Methanocorpusculaceae › Methanocorpusculum

Protein attributes

Sequence length	546 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: UniProtKB-KW DNA repair Inferred from electronic annotation. Source: UniProtKB-KW DNA replication Inferred from electronic annotation. Source: UniProtKB-KW 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: UniProtKB-KW DNA binding Inferred from electronic annotation. Source: InterPro DNA ligase (ATP) activity Inferred from electronic annotation. Source: EC 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 – 546	546	DNA ligase HAMAP MF_00407		PRO_0000365254
Sites
	Active site	246	1	N6-AMP-lysine intermediate By similarity
	Binding site	244	1	ATP By similarity
	Binding site	251	1	ATP By similarity
	Binding site	266	1	ATP By similarity
	Binding site	295	1	ATP By similarity
	Binding site	334	1	ATP By similarity
	Binding site	405	1	ATP By similarity
	Binding site	411	1	ATP By similarity

Sequences

	Sequence		Length	Mass (Da)
	A2SR38 [UniParc]. Last modified March 6, 2007. Version 1. Checksum: E830A47BEE2DAF24	FASTA	546	61,358
	10 20 30 40 50 60 MQFVEFAEIC NTIEGTSSRL ATADILAEKF PLLTEEELPV FVRFMRGRLF PDWSSEKLGF 70 80 90 100 110 120 GPNLLYDALA YVIGKKRSYV VSAINNAGDI GKVVESLIEK REQTMFFSEE LDLLDVNARF 130 140 150 160 170 180 LQMAKSSGRR SQQERLRSAQ YLLSNATPLE GRYLARLMLE EMRIGVGEGV VKDAVSKAFG 190 200 210 220 230 240 VPSDIVEHAH QALNDLGEVA FLAKTDPSRL SNVHITAFRP VKMMLAQQGS ITSMVETHGT 250 260 270 280 290 300 LAAENKYDGS RFQFHKSGGK CAIYSRRLEE MTASLPDVVK MLDKATDHDV IIDGEVIAIM 310 320 330 340 350 360 NGKPMPFQTI LRRIRRKHDV GDAQEAITLL PWVFDILAAD GETLIDLPFR ERRKILESVM 370 380 390 400 410 420 NAYVAPQLVS DSAEEIEAYY HSSLDNGNEG IMLKVLDSPY LPGNRGKLWI KIKPEVDTID 430 440 450 460 470 480 LVVTAAEWGE GKRAKMFGSF LLACQDENGD LLEISRVATG IDDSMLSTLY DLFKDKIIAE 490 500 510 520 530 540 KGKTVTFEPD VVFEVGYAEL QKSTNYEAGY ALRFPRFVRL RDDKDVSEIE TLESLTRRYS LQNKEE

References

[1]

"Complete genome sequence of Methanocorpusculum labreanum type strain Z." Anderson I.J., Sieprawska-Lupa M., Goltsman E., Lapidus A., Copeland A., Glavina Del Rio T., Tice H., Dalin E., Barry K., Pitluck S., Hauser L., Land M., Lucas S., Richardson P., Whitman W.B., Kyrpides N.C. Stand. Genomic Sci. 1:197-203(2009) [PubMed: 21304657] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 43576 / DSM 4855 / Z.

Cross-references

Sequence databases
EMBL GenBank DDBJ	CP000559 Genomic DNA. Translation: ABN06794.1.
RefSeq	YP_001030061.1. NC_008942.1.
3D structure databases
ProteinModelPortal	A2SR38.
ModBase	Search...
Protein-protein interaction databases
STRING	A2SR38.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
GeneID	4795702.
GenomeReviews	Gene locus Mlab_0620 in contig CP000559_GR.
KEGG	mla:Mlab_0620.
Organism-specific databases
CMR	Search...
Phylogenomic databases
eggNOG	arNOG04596.
HOGENOM	HBG570821.
OMA	GRPRPFQ.
PhylomeDB	A2SR38.
ProtClustDB	CLSK949919.
Enzyme and pathway databases
BioCyc	MLAB410358:MLAB_0620-MONOMER.
Family and domain databases
HAMAP	MF_00407. DNA_ligase. [Tree]
InterPro	IPR022865. DNA_ligae_ATP-dep_bac/arc. IPR000977. DNA_ligase_ATP-dep. IPR012309. DNA_ligase_ATP-dep_C. IPR012310. DNA_ligase_ATP-dep_cent. IPR012308. DNA_ligase_ATP-dep_N. IPR012340. NA-bd_OB-fold. IPR016027. NA-bd_OB-fold-like. [Graphical view]
Gene3D	G3DSA:1.10.3260.10. DNA_ligase_ATP-dep_N. 1 hit. G3DSA:2.40.50.140. OB_NA_bd_sub. 1 hit.
KO	K10747.
Pfam	PF04679. DNA_ligase_A_C. 1 hit. PF01068. DNA_ligase_A_M. 1 hit. PF04675. DNA_ligase_A_N. 1 hit. [Graphical view]
SUPFAM	SSF50249. Nucleic_acid_OB. 1 hit. SSF117018. SSF117018. 1 hit.
TIGRFAMs	TIGR00574. Dnl1. 1 hit.
PROSITE	PS00697. DNA_LIGASE_A1. False negative. PS00333. DNA_LIGASE_A2. False negative. PS50160. DNA_LIGASE_A3. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

DNLI_METLZ

Accession

Primary (citable) accession number: A2SR38

Entry history

Integrated into UniProtKB/Swiss-Prot:	March 3, 2009
Last sequence update:	March 6, 2007
Last modified:	November 16, 2011
This is version 42 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program