DNA ligase 1 - Methanosarcina acetivorans (strain ATCC 35395 / DSM 2834 / JCM 12185 / C2A)

Preferred order of sections

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:	MA_0728

Organism

Methanosarcina acetivorans (strain ATCC 35395 / DSM 2834 / JCM 12185 / C2A) [Reference proteome] [HAMAP]

Taxonomic identifier

188937 [NCBI]

Taxonomic lineage

Archaea › Euryarchaeota › Methanomicrobia › Methanosarcinales › Methanosarcinaceae › Methanosarcina ›

Protein attributes

Sequence length	580 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 Reference 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 cell cycle Inferred from electronic annotation. Source: UniProtKB-KW cell division Inferred from electronic annotation. Source: UniProtKB-KW lagging strand elongation Inferred from Biological aspect of Ancestor. Source: RefGenome nucleotide-excision repair Inferred from Biological aspect of Ancestor. Source: RefGenome
Cellular_component	chromosome Inferred from Biological aspect of Ancestor. Source: RefGenome
Molecular_function	ATP binding Inferred from electronic annotation. Source: HAMAP DNA binding Inferred from electronic annotation. Source: InterPro DNA ligase (ATP) activity Inferred from Biological aspect of Ancestor. Source: RefGenome 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 – 580

580

DNA ligase 1 HAMAP-Rule MF_00407

PRO_0000365257

Sites

Active site

247

1

N6-AMP-lysine intermediate By similarity

Binding site

245

1

ATP By similarity

Binding site

252

1

ATP By similarity

Binding site

267

1

ATP By similarity

Binding site

297

1

ATP By similarity

Binding site

343

1

ATP By similarity

Binding site

420

1

ATP By similarity

Binding site

426

1

ATP By similarity

Sequences

Sequence

Length

Mass (Da)

Tools

Q8TSR7 [UniParc].

Last modified June 1, 2002. Version 1.
Checksum: 31C511F878C79E73
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FASTA

580

65,351

        10         20         30         40         50         60 
MVRFKELAEL FEELERITSH KEIVRKLAGF FGGLKGDEVK DSAYLFLGSI GPAFENTTLG 

        70         80         90        100        110        120 
IKDRLVTRAI AGAYGVSEEE VKKRYARAGD LGDVAFELSK KREASLTIEE VFKRLRQIKE 

       130        140        150        160        170        180 
ASGKGSQEKK TGLLSDILQK ATPEEGKYII RIVLGRLRLG FGDQFLLEAF SIAFTGDKKH 

       190        200        210        220        230        240 
AGKIKESYSV CTDIGELAQT LAEHGAGAPG YFSIKPGRPV KSMLAQRVES FEELEERIKG 

       250        260        270        280        290        300 
KKAAEEKYDG ERVQIHKAGD EIKAFSRRLE DITAQYPDII EAVRESISAD TIVLDGEIVA 

       310        320        330        340        350        360 
YAELEKENTR IEEFYPFQNL MQRRRKYEVE KYREKCPVAV FFFDILYLNG ESLLKKTYPE 

       370        380        390        400        410        420 
RRALLEEHVN GSGIVHLTRR TVTENIEELE DFFNETVEKG LEGIVAKSMS SNSVYEAGKR 

       430        440        450        460        470        480 
SWLWLKWKQE YSEGMRETFD LVVVGSYYGK GKRKGSFGAL LCAVLNEEEQ QFETFTKVGT 

       490        500        510        520        530        540 
GFTEADAEEI NSLLSAHTVS EAPKNVIIKK GMLPDIFIEP AVVIEVLGSE ITNSPGHTAG 

       550        560        570        580 
EGEEETGLAL RFPRFLRIRY DRAPFDATTV REIRDLKEGI

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References

[1]

"The genome of Methanosarcina acetivorans reveals extensive metabolic and physiological diversity."
Galagan J.E., Nusbaum C., Roy A., Endrizzi M.G., Macdonald P., FitzHugh W., Calvo S., Engels R., Smirnov S., Atnoor D., Brown A., Allen N., Naylor J., Stange-Thomann N., DeArellano K., Johnson R., Linton L., McEwan P.

Birren B.
Genome Res. 12:532-542(2002) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: ATCC 35395 / DSM 2834 / JCM 12185 / C2A.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AE010299 Genomic DNA. Translation: AAM04168.1.
RefSeq	NP_615688.1. NC_003552.1.
3D structure databases
HSSP	HSSP built from PDB template 1X9N based on UniProtKB P18858.
ProteinModelPortal	Q8TSR7.
ModBase	Search...
Protein-protein interaction databases
STRING	188937.MA0728.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	AAM04168; AAM04168; MA_0728.
GeneID	1472620.
KEGG	mac:MA0728.
Phylogenomic databases
eggNOG	COG1793.
KO	K10747.
OMA	PAFENTT.
ProtClustDB	CLSK281490.
Enzyme and pathway databases
BioCyc	MACE188937:GI2O-796-MONOMER.
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_METAC

Accession

Primary (citable) accession number: Q8TSR7

Entry history

Integrated into UniProtKB/Swiss-Prot:	March 3, 2009
Last sequence update:	June 1, 2002
Last modified:	May 1, 2013
This is version 80 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

Preferred order of sections

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Sequence annotation (Features)

Molecule processing

Sites

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

Protocols and materials databases

Genome annotation databases

Phylogenomic databases

Enzyme and pathway databases

Family and domain databases

Entry information

Relevant documents