Reviewed, UniProtKB/Swiss-Prot Q0VS00 (DDL_ALCBS)

Names and origin

Protein names

Recommended name:
    D-alanine--D-alanine ligase
    EC=6.3.2.4
Alternative name(s):
    D-alanylalanine synthetase
    D-Ala-D-Ala ligase

Gene names

Name:	ddl
Ordered Locus Names:	ABO_0600

Organism

Alcanivorax borkumensis (strain SK2 / ATCC 700651 / DSM 11573) [Complete proteome] [HAMAP]

Taxonomic identifier

393595 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Gammaproteobacteria › Oceanospirillales › Alcanivoracaceae › Alcanivorax

Protein attributes

Sequence length	307 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
Protein existence	Inferred from homology.

General annotation (Comments)

Function	Cell wall formation By similarity.
Catalytic activity	ATP + 2 D-alanine = ADP + phosphate + D-alanyl-D-alanine. HAMAP MF_00047
Cofactor	Binds 2 magnesium or manganese ions per subunit By similarity.
Pathway	Cell wall biogenesis; peptidoglycan biosynthesis. HAMAP MF_00047
Subcellular location	Cytoplasm By similarity.
Sequence similarities	Belongs to the D-alanine--D-alanine ligase family. Contains 1 ATP-grasp domain.

Ontologies

Keywords
Biological process	Cell shape Cell wall biogenesis/degradation Peptidoglycan synthesis
Cellular component	Cytoplasm
Ligand	ATP-binding Magnesium Manganese Metal-binding Nucleotide-binding
Molecular function	Ligase
Technical term	Complete proteome
Gene Ontology (GO)
Biological process	cell wall organization Inferred from electronic annotation. Source: UniProtKB-KW peptidoglycan biosynthetic process Inferred from electronic annotation. Source: HAMAP regulation of cell shape Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	cell wall Inferred from electronic annotation. Source: InterPro cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	ATP binding Inferred from electronic annotation. Source: UniProtKB-KW D-alanine-D-alanine ligase activity Inferred from electronic annotation. Source: HAMAP magnesium ion binding Inferred from electronic annotation. Source: UniProtKB-KW manganese 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 – 307	307	D-alanine--D-alanine ligase HAMAP MF_00047		PRO_0000341048
Regions
	Domain	110 – 299	190	ATP-grasp
	Nucleotide binding	136 – 185	50	ATP By similarity
Sites
	Metal binding	253	1	Magnesium or manganese 1 By similarity
	Metal binding	266	1	Magnesium or manganese 1 By similarity
	Metal binding	266	1	Magnesium or manganese 2 By similarity
	Metal binding	268	1	Magnesium or manganese 2 By similarity

Sequences

	Sequence		Length	Mass (Da)
	Q0VS00-1 [UniParc]. Last modified September 5, 2006. Version 1. Checksum: CDB08412E311061A	FASTA	307	32,851
	10 20 30 40 50 60 MDKRALKERL SRVGRVAVLA GGRSAERAVS LKSGAAVHAG LRNLGLLAEL VDPADKSVDT 70 80 90 100 110 120 LRGFDAAFIA LHGRGGEDGV IQGVLEHLEI PYTGSGVMAS AIGMDKVRTK QLWKGAGLPT 130 140 150 160 170 180 PAFYVAGREE AELGFPVIVK PAHEGSSIGM AKADNTEELG EALVAAEKFD QDVLVEAWVN 190 200 210 220 230 240 GPEYTVAVLG DEALPAIRLQ TPHVFYDFEA KYQSDSTEYL CPAGLDDADE QALRTLALTA 250 260 270 280 290 300 FRVAGCRGWG RVDVMRDEQG QWQLLEVNTV PGMTDHSLVP MAAKATGRDF DVLVGEILLD ALERGRG

References

[1]

"Genome sequence of the ubiquitous hydrocarbon-degrading marine bacterium Alcanivorax borkumensis." Schneiker S., Martins dos Santos V.A.P., Bartels D., Bekel T., Brecht M., Buhrmester J., Chernikova T.N., Denaro R., Ferrer M., Gertler C., Goesmann A., Golyshina O.V., Kaminski F., Khachane A.N., Lang S., Linke B., McHardy A.C., Meyer F. , Nechitaylo T., Puehler A., Regenhardt D., Rupp O., Sabirova J.S., Selbitschka W., Yakimov M.M., Timmis K.N., Vorhoelter F.-J., Weidner S., Kaiser O., Golyshin P.N. Nat. Biotechnol. 24:997-1004(2006) [PubMed: 16878126] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].

Cross-references

Sequence databases
EMBLGenBankDDBJ	AM286690 Genomic DNA. Translation: CAL16048.1.
RefSeq	YP_692320.1.
3D structure databases
ModBase	Search...
Genome annotation databases
GeneID	4212209.
GenomeReviews	Gene locus ABO_0600 in contig AM286690_GR.
KEGG	abo:ABO_0600.
NMPDR	fig|393595.12.peg.598.
Organism-specific databases
CMR	Search...
Phylogenomic databases
HOGENOM	Q0VS00.
OMA	Q0VS00. VPYTGSD.
Enzyme and pathway databases
BioCyc	ABOR393595:ABO_0600-MON.
Family and domain databases
HAMAP	MF_00047. [Tree]
InterPro	IPR011761. ATP-grasp. IPR013816. ATP_grasp_subdomain_2. IPR000291. D-Ala_lig_Van_CS. IPR005905. D_ala_D_ala. IPR011095. Dala_Dala_lig_C. IPR011127. Dala_Dala_lig_N. IPR013817. Pre-ATP_grasp. [Graphical view]
Gene3D	G3DSA:3.30.470.20. ATP_grasp_subdomain_2. 1 hit. G3DSA:3.40.50.20. Pre-ATP_grasp. 1 hit.
Pfam	PF07478. Dala_Dala_lig_C. 1 hit. PF01820. Dala_Dala_lig_N. 1 hit. [Graphical view]
TIGRFAMs	TIGR01205. D_ala_D_alaTIGR. 1 hit.
PROSITE	PS50975. ATP_GRASP. 1 hit. PS00843. DALA_DALA_LIGASE_1. 1 hit. PS00844. DALA_DALA_LIGASE_2. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

DDL_ALCBS

Accession

Primary (citable) accession number: Q0VS00

Entry history

Integrated into UniProtKB/Swiss-Prot:	June 10, 2008
Last sequence update:	September 5, 2006
Last modified:	June 16, 2009
This is version 30 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)