Reviewed, UniProtKB/Swiss-Prot Q46C04 (DNLI1_METBF)

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:	Mbar_A1643

Organism

Methanosarcina barkeri (strain Fusaro / DSM 804) [Complete proteome] [HAMAP]

Taxonomic identifier

269797 [NCBI]

Taxonomic lineage

Archaea › Euryarchaeota › Methanomicrobia › Methanosarcinales › Methanosarcinaceae › Methanosarcina

Protein attributes

Sequence length	549 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
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.
Catalytic activity	ATP + (deoxyribonucleotide)(n) + (deoxyribonucleotide)(m) = AMP + diphosphate + (deoxyribonucleotide)(n+m). HAMAP 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 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 – 549	549	DNA ligase 1 HAMAP MF_00407		PRO_0000365258
Sites
	Active site	214	1	N6-AMP-lysine intermediate By similarity
	Binding site	212	1	ATP By similarity
	Binding site	219	1	ATP By similarity
	Binding site	234	1	ATP By similarity
	Binding site	264	1	ATP By similarity
	Binding site	310	1	ATP By similarity
	Binding site	387	1	ATP By similarity
	Binding site	393	1	ATP By similarity

Sequences

	Sequence		Length	Mass (Da)
	Q46C04-1 [UniParc]. Last modified September 13, 2005. Version 1. Checksum: AFEDB817138AF856	FASTA	549	61,905
	10 20 30 40 50 60 MERKEIKDSA YLFLGSIGPA FENITLGIGD KLALKAIAGA YRVSEEEVKK RYSRTGDLGD 70 80 90 100 110 120 VAFELNQGEE KSLAIDEVFG SLKEIKEASG KGSQEEKTGL LSSILQRASP KEGKYIVRIV 130 140 150 160 170 180 LGKLRLGFGD QFLLEAFSIA FTGDKKYVVK IKESYSVCTD IGELAESLAE QGPKALGHFS 190 200 210 220 230 240 IKLGRPVRSM LAQRVKTFEE LEERIPGKKA AEEKYDGERV QIHKNGEEIK AFSRRLEDIT 250 260 270 280 290 300 AQYPDVIEAV RKGILAKKIV LDGEIIAYVE GGKANDSTGE FYSFQRLMKR RRKYEVQKYT 310 320 330 340 350 360 EICPVAVFFF DILYLEGNSL LKKPYPERRA ILEEHVKESE ILHLARRIVT DNLEEIEDFF 370 380 390 400 410 420 NEALEKRLEG IIIKSMGRNS AYEAGKRSWF WLKWKEEYAS GMRETFDLAI IGKYYGRGKR 430 440 450 460 470 480 KGSFGALLCA ILNGEEQRFE TFTKVGTGFT EADAKEIDSL LSEHIISEVP KNVLIKSRML 490 500 510 520 530 540 PDIFVEPSLV IEVLGSEITE SPSHTAGQGE GDTGLALRFP RFLRIRHDKG PYDITTLTEV RNLKEGKSI

References

[1]

"The Methanosarcina barkeri genome: comparative analysis with Methanosarcina acetivorans and Methanosarcina mazei reveals extensive rearrangement within methanosarcinal genomes." Maeder D.L., Anderson I., Brettin T.S., Bruce D.C., Gilna P., Han C.S., Lapidus A., Metcalf W.W., Saunders E., Tapia R., Sowers K.R. J. Bacteriol. 188:7922-7931(2006) [PubMed: 16980466] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].

Cross-references

Sequence databases
EMBLGenBankDDBJ	CP000099 Genomic DNA. Translation: AAZ70588.1.
RefSeq	YP_305168.1.
3D structure databases
ModBase	Search...
Protein-protein interaction databases
STRING	Q46C04.
Genome annotation databases
GeneID	3625441.
GenomeReviews	Gene locus Mbar_A1643 in contig CP000099_GR.
KEGG	mba:Mbar_A1643.
NMPDR	fig|269797.3.peg.2042.
Organism-specific databases
CMR	Search...
Phylogenomic databases
HOGENOM	Q46C04.
OMA	RIVITHI.
Enzyme and pathway databases
BioCyc	MBAR269797:MBAR_A1643-MON.
Family and domain databases
HAMAP	MF_00407. Divergent sequence. [Tree]
InterPro	IPR000977. DNA_ligase. IPR012309. DNA_ligase_A_C. IPR012310. DNA_ligase_A_M. IPR012308. DNA_ligase_A_N. 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. PF04675. DNA_ligase_A_N. 1 hit. [Graphical view]
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_METBF

Accession

Primary (citable) accession number: Q46C04

Entry history

Integrated into UniProtKB/Swiss-Prot:	March 3, 2009
Last sequence update:	September 13, 2005
Last modified:	November 3, 2009
This is version 37 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HAMAP (High-quality Automated and Manual Annotation of microbial Proteomes)