DNA ligase - Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440)

Preferred order of sections

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:	MJ0171

Organism

Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440) (Methanococcus jannaschii)

Taxonomic identifier

243232 [NCBI]

Taxonomic lineage

Archaea › Euryarchaeota › Methanococci › Methanococcales › Methanocaldococcaceae › Methanocaldococcus

Protein attributes

Sequence length	573 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 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: 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 – 573

573

DNA ligase HAMAP MF_00407

PRO_0000059604

Sites

Active site

250

1

N6-AMP-lysine intermediate By similarity

Binding site

248

1

ATP By similarity

Binding site

255

1

ATP By similarity

Binding site

270

1

ATP By similarity

Binding site

299

1

ATP By similarity

Binding site

340

1

ATP By similarity

Binding site

432

1

ATP By similarity

Binding site

438

1

ATP By similarity

Sequences

Sequence

Length

Mass (Da)

Tools

Q57635 [UniParc].

Last modified November 1, 1996. Version 1.
Checksum: 6F95434EE968038C
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FASTA

573

66,790

        10         20         30         40         50         60 
MLWRDVCEIF NKIEKTTKRL EKRDYFIKLI DMVKEKGKPE DLKKICYMAI GRVYPEYDER 

        70         80         90        100        110        120 
ELGIGEKLLI NAVTSIGIKK DELLEKIKET GDIGLAIEQL KSKIKQASLF FQPLTVDEVY 

       130        140        150        160        170        180 
ETLKRVGEIE GEGSQKKKLR LISSLFLRAS PIECRYLARL ILEDMRIGMN VPTILDALSV 

       190        200        210        220        230        240 
YFNVPKEKLE KIYAITNDIG LLAEKLLMGD LESEELKLKL FRPIKPMLAQ LTPSIEEALL 

       250        260        270        280        290        300 
EMGRAQFETK YDGARVQIHK DGNKVKIYSR RLEDVTNALP EIVEAVKNIN VDKLIVEGEC 

       310        320        330        340        350        360 
VAIDKQTGKP RPFQDILRRF RRKYDIGKMM KEINLRVYLF DILYKDGVSF IDEEFEKRRK 

       370        380        390        400        410        420 
VLEEIVGYEN DWRTERKRIE KELKSDKIID ISYKLVTNDA KEAREFYNWS LSIGHEGVMI 

       430        440        450        460        470        480 
KNLKAPYTPG SRVRTMYKFK PTLESLDVVI TKAKRGMGKR KDWYGSFEIC VRDEEGNLYP 

       490        500        510        520        530        540 
IGHVGTGLTE ADLEFLKEEI DKIIIRDLGE EVEVEPKIVI EVAYEEIQKS DKYPCGYALR 

       550        560        570 
FPRVVRFRFD KGVNEINTIE DVERIYEIQR GRK

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References

[1]

"Complete genome sequence of the methanogenic archaeon, Methanococcus jannaschii."
Bult C.J., White O., Olsen G.J., Zhou L., Fleischmann R.D., Sutton G.G., Blake J.A., FitzGerald L.M., Clayton R.A., Gocayne J.D., Kerlavage A.R., Dougherty B.A., Tomb J.-F., Adams M.D., Reich C.I., Overbeek R., Kirkness E.F., Weinstock K.G.

Venter J.C.
Science 273:1058-1073(1996) [PubMed: 8688087] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440.

Cross-references

Sequence databases
EMBL GenBank DDBJ	L77117 Genomic DNA. Translation: AAB98156.1.
PIR	D64321.
RefSeq	NP_247139.1. NC_000909.1.
3D structure databases
ProteinModelPortal	Q57635.
ModBase	Search...
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
GeneID	1451018.
GenomeReviews	Gene locus MJ0171 in contig L77117_GR.
KEGG	mja:MJ_0171.
NMPDR	fig\|243232.1.peg.176.
TIGR	MJ0171.
Phylogenomic databases
HOGENOM	HBG570821.
OMA	GRPRPFQ.
ProtClustDB	CLSK876100.
Enzyme and pathway databases
BioCyc	MJAN243232:MJ_0171-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. IPR016059. DNA_ligase_ATP-dep_CS. 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. 1 hit. PS00333. DNA_LIGASE_A2. 1 hit. PS50160. DNA_LIGASE_A3. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

DNLI_METJA

Accession

Primary (citable) accession number: Q57635

Entry history

Integrated into UniProtKB/Swiss-Prot:	November 1, 1997
Last sequence update:	November 1, 1996
Last modified:	November 16, 2011
This is version 82 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

Methanococcus jannaschii

Methanococcus jannaschii: entries and gene names

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

Protocols and materials databases

Genome annotation databases

Phylogenomic databases

Enzyme and pathway databases

Family and domain databases

Entry information

Relevant documents