Q8PVR7 (DNLI1_METMA) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
DNA ligase 1
EC=6.5.1.1

Alternative name(s):
Polydeoxyribonucleotide synthase [ATP] 1

Gene names

Name:	lig1
Ordered Locus Names:	MM_1895

Organism

Methanosarcina mazei (strain ATCC BAA-159 / DSM 3647 / Goe1 / Go1 / JCM 11833 / OCM 88) (Methanosarcina frisia) [Complete proteome] [HAMAP]

Taxonomic identifier

192952 [NCBI]

Taxonomic lineage

cellular organisms › Archaea › Euryarchaeota › Methanomicrobia › Methanosarcinales › Methanosarcinaceae › Methanosarcina › Methanosarcina mazei

Protein attributes

Sequence length	579 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-Rule MF_00407
Catalytic activity	ATP + (deoxyribonucleotide)(n) + (deoxyribonucleotide)(m) = AMP + diphosphate + (deoxyribonucleotide)(n+m). HAMAP-Rule 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 ligation involved in DNA repair Inferred from electronic annotation. Source: InterPro DNA recombination 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 – 579	579	DNA ligase 1 HAMAP-Rule MF_00407		PRO_0000365259
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	296	1	ATP By similarity
	Binding site	342	1	ATP By similarity
	Binding site	419	1	ATP By similarity
	Binding site	425	1	ATP By similarity

Sequences

	Sequence		Length	Mass (Da)
	Q8PVR7 [UniParc]. Last modified October 1, 2002. Version 1. Checksum: 9E11E66075B8DEEC	FASTA	579	65,867
	10 20 30 40 50 60 MRFKELAELF EELEKTTSHR EIVRKISEFF KNLRGDEVKD SAYLFLGSTG PAFENTTLGI 70 80 90 100 110 120 KDMLAIRAIA GAYGVTREDV RKRYARTGDL GDVAFELSKK RESSLTIEDV FQRLLQIRET 130 140 150 160 170 180 SGKGSQEEKT ALFSDILQKA TPEEGKYIVR LVLGRLRLGF GDQFLLEAFA IAFTGDKKHA 190 200 210 220 230 240 AKIKESYSVC TDIGELAKIL AENGARATGF ISIKPGRPVK SMLSQRVESF EELEKRVKGK 250 260 270 280 290 300 KAAEEKYDGE RVQVHKTGEG IKAFSRRLED ITSQYPEIIE DVRKTVPANE IVLDGEIVAY 310 320 330 340 350 360 AELERNGNRI EEFYPFQNLM QRRRKYEIEN YRKKCPVAVF FFDILYLNGE PLLKRPYPER 370 380 390 400 410 420 RALLEMNVVE SGIIRLSKRI VTESVEEIED FFNETIEKGL EGIVVKSMSS NSYYEAGKRS 430 440 450 460 470 480 WFWFKWKQEY SEGMRETFDL VVVGSYYGRG RRKGSFGALL CAVLNKEGQR FETLTKVGTG 490 500 510 520 530 540 FTEADAEEIN RLLSDHIVSE IPKGVSIKKG MLPDIFIEPA VVIEVLGSEI TNSPGHTAGE 550 560 570 GEEETGLALR FPRFLRIRHD KTPYDAMTVK EVRDLKDGT

References

[1]

"The genome of Methanosarcina mazei: evidence for lateral gene transfer between Bacteria and Archaea." Deppenmeier U., Johann A., Hartsch T., Merkl R., Schmitz R.A., Martinez-Arias R., Henne A., Wiezer A., Baeumer S., Jacobi C., Brueggemann H., Lienard T., Christmann A., Boemecke M., Steckel S., Bhattacharyya A., Lykidis A., Overbeek R. , Klenk H.-P., Gunsalus R.P., Fritz H.-J., Gottschalk G. J. Mol. Microbiol. Biotechnol. 4:453-461(2002) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC BAA-159 / DSM 3647 / Goe1 / Go1 / JCM 11833 / OCM 88.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AE008384 Genomic DNA. Translation: AAM31591.1.
RefSeq	NP_633919.1. NC_003901.1.
3D structure databases
HSSP	HSSP built from PDB template 1X9N based on UniProtKB P18858.
ProteinModelPortal	Q8PVR7.
ModBase	Search...
Protein-protein interaction databases
STRING	192952.MM_1895.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	AAM31591; AAM31591; MM_1895.
GeneID	1480237.
KEGG	mma:MM_1895.
Organism-specific databases
CMR	Search...
Phylogenomic databases
eggNOG	COG1793.
HOGENOM	HOG000036008.
KO	K10747.
OMA	PAFENTT.
ProtClustDB	CLSK281490.
Family and domain databases
Gene3D	1.10.3260.10. 1 hit. 2.40.50.140. 1 hit.
HAMAP	MF_00407. DNA_ligase.
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. IPR016059. DNA_ligase_ATP-dep_CS. IPR012308. DNA_ligase_ATP-dep_N. IPR012340. NA-bd_OB-fold. [Graphical view]
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. 1 hit. PS00333. DNA_LIGASE_A2. False negative. PS50160. DNA_LIGASE_A3. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

DNLI1_METMA

Accession

Primary (citable) accession number: Q8PVR7

Entry history

Integrated into UniProtKB/Swiss-Prot:	March 3, 2009
Last sequence update:	October 1, 2002
Last modified:	May 1, 2013
This is version 79 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program