Reviewed, UniProtKB/Swiss-Prot B5YD88 (DNLI_DICT6)

Names and origin

Protein names

Recommended name:
    Probable DNA ligase
    EC=6.5.1.1
Alternative name(s):
    Polydeoxyribonucleotide synthase [ATP]

Gene names

Name:	lig
Ordered Locus Names:	DICTH_0616

Organism

Dictyoglomus thermophilum (strain ATCC 35947 / DSM 3960 / H-6-12) [Complete proteome] [HAMAP]

Taxonomic identifier

309799 [NCBI]

Taxonomic lineage

Bacteria › Dictyoglomi › Dictyoglomales › Dictyoglomaceae › Dictyoglomus

Protein attributes

Sequence length	582 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 – 582	582	Probable DNA ligase HAMAP MF_00407		PRO_0000365219
Sites
	Active site	245	1	N6-AMP-lysine intermediate By similarity
	Binding site	243	1	ATP By similarity
	Binding site	250	1	ATP By similarity
	Binding site	265	1	ATP By similarity
	Binding site	295	1	ATP By similarity
	Binding site	335	1	ATP By similarity
	Binding site	410	1	ATP By similarity
	Binding site	416	1	ATP By similarity

Sequences

	Sequence		Length	Mass (Da)
	B5YD88-1 [UniParc]. Last modified November 25, 2008. Version 1. Checksum: 5AB0045336097A03	FASTA	582	66,791
	10 20 30 40 50 60 MLFGELAQYF ERIEKTTKRN EMMEILADLF RKVDKEEIDK IIYLLNGRVA PDYEKIEFGM 70 80 90 100 110 120 SDKLVLRAMA LALKIPLLEL ERSYKEVGDL GELVVKYSKN EGKDLTVVET FNTLYDIANL 130 140 150 160 170 180 SGEGSVDAKV NRLAFLINSL TPQGGKYLVR IVLGKLRLGV GEPTIMDALS FAKVKDKGLR 190 200 210 220 230 240 PFIERAFNIT SDLGYVAKVF WEGGVEALKR IKVQVGRPIR MALAERVSRA EEIIKRLGKC 250 260 270 280 290 300 AVEPKFDGFR CQIHKKENSV RIFSRNLEDN TYMFPDLVEA VLKQFPDRDV IIEGEAISYN 310 320 330 340 350 360 PETGEFYPFQ VTVQRKRKYN ISEMVELYPL QLFAFDILYL DGEDTTSLPY IRRRQKLEEA 370 380 390 400 410 420 LVEGEKISIT KNIITNDPKE IQSFFEECIT EGLEGIVAKR LDAPYQAGMR NFNWIKLKRS 430 440 450 460 470 480 YQGHLADTVD CVILGYFKGR GHRAKFGIGA LLVGVYDDER DLFKTIAKIG TGPTEEEWVK 490 500 510 520 530 540 FREILDEIKV EKRPNNVESF IEPDVWVEPK YVVVVQADEI TRSPVHTCGR ELDGLGYALR 550 560 570 580 FPRVQGFVRE DKGPYDATTV KEILEMFRNQ KKEKVEEDSD LL

References

[1]	"The complete genome sequence of Dictyoglomus thermophilum strain ATCC 35947 / DSM 3960 / H-6-12." Dodson R.J., Durkin A.S., Wu M., Eisen J., Sutton G. Submitted (AUG-2008) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].

Cross-references

Sequence databases
EMBLGenBankDDBJ	CP001146 Genomic DNA. Translation: ACI19645.1.
RefSeq	YP_002250496.1.
3D structure databases
ModBase	Search...
Genome annotation databases
GeneID	6946484.
GenomeReviews	Gene locus DICTH_0616 in contig CP001146_GR.
KEGG	dth:DICTH_0616.
Organism-specific databases
CMR	Search...
Phylogenomic databases
OMA	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. 1 hit. PS50160. DNA_LIGASE_A3. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

DNLI_DICT6

Accession

Primary (citable) accession number: B5YD88

Entry history

Integrated into UniProtKB/Swiss-Prot:	March 3, 2009
Last sequence update:	November 25, 2008
Last modified:	November 3, 2009
This is version 9 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)