Reviewed, UniProtKB/Swiss-Prot A1RTK4 (DNLI_PYRIL)

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:	Pisl_1115

Organism

Pyrobaculum islandicum (strain DSM 4184 / JCM 9189) [Complete proteome] [HAMAP]

Taxonomic identifier

384616 [NCBI]

Taxonomic lineage

Archaea › Crenarchaeota › Thermoprotei › Thermoproteales › Thermoproteaceae › Pyrobaculum

Protein attributes

Sequence length	584 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 – 584	584	DNA ligase HAMAP MF_00407		PRO_1000049877
Sites
	Active site	251	1	N6-AMP-lysine intermediate By similarity
	Binding site	249	1	ATP By similarity
	Binding site	256	1	ATP By similarity
	Binding site	271	1	ATP By similarity
	Binding site	301	1	ATP By similarity
	Binding site	341	1	ATP By similarity
	Binding site	416	1	ATP By similarity
	Binding site	422	1	ATP By similarity

Sequences

	Sequence		Length	Mass (Da)
	A1RTK4-1 [UniParc]. Last modified February 6, 2007. Version 1. Checksum: D050BF645449D34A	FASTA	584	65,093
	10 20 30 40 50 60 MQFGELVKTL AAVESTTQRT TMVKLLTSLF KKARPEEIDK IIYFVLGDLR PPWEGVELGV 70 80 90 100 110 120 AEKLCLRAVS KATGVSISEL EALYKKTGDV GEAARKALST AKRPGLLAFG QQKPLEVSEV 130 140 150 160 170 180 YDTLLKVAQA SGEGAQDMKI SLLASLFAKA SPEEAKYIAR FVVGKLRLGV ADMTLIEALS 190 200 210 220 230 240 DAFGVDKEAL ERAYHIYPDL GKLARHVAEG RPLEEIKITP GVPVLPMLAQ RLSSSSEILA 250 260 270 280 290 300 KLGGSAICEY KYDGERAQIH LKEGVVKIFS RRLEDITHAY PDVVKAVREA VSAREAILEG 310 320 330 340 350 360 EIVAIDPDTG DMLPFQELMH RKRKHEVAVA VEMYPVVLNL FDLLYIDGED LTNEPLIYRR 370 380 390 400 410 420 VRLSEVVQET EKVSIAKWRV FDDAEEIDVF FHEAVSLGME GLVCKSPTSV YEMGARGWNW 430 440 450 460 470 480 IKYKRDYKSE MIDTVDLVVV GAFYGRGKRA GLYGAFLLAA YDPATDMFYT VCKVGSGFTD 490 500 510 520 530 540 ADLKKMYEML QPYKIPHRHP RVVSKMEPDV WFTPQVVIEV IGAEITLSPL HTCCLGAVKP 550 560 570 580 GVGLAIRFPR FTGRYRTDKS PEQATTVSEM IELYKRQKKV AQPE

References

[1]

"Complete sequence of Pyrobaculum islandicum DSM 4184." Copeland A., Lucas S., Lapidus A., Barry K., Detter J.C., Glavina del Rio T., Dalin E., Tice H., Pitluck S., Meincke L., Brettin T., Bruce D., Han C., Tapia R., Gilna P., Schmutz J., Larimer F., Land M. , Hauser L., Kyrpides N., Mikhailova N., Lowe T., Richardson P. Submitted (DEC-2006) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].

Cross-references

Sequence databases
EMBLGenBankDDBJ	CP000504 Genomic DNA. Translation: ABL88286.1.
RefSeq	YP_930629.1.
3D structure databases
ModBase	Search...
Genome annotation databases
GeneID	4616742.
GenomeReviews	Gene locus Pisl_1115 in contig CP000504_GR.
KEGG	pis:Pisl_1115.
Organism-specific databases
CMR	Search...
Phylogenomic databases
OMA	A1RTK4. RNWLKLK.
Family and domain databases
HAMAP	MF_00407. [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

DNLI_PYRIL

Accession

Primary (citable) accession number: A1RTK4

Entry history

Integrated into UniProtKB/Swiss-Prot:	January 15, 2008
Last sequence update:	February 6, 2007
Last modified:	May 5, 2009
This is version 18 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)