Reviewed, UniProtKB/Swiss-Prot A1TKD3 (DDL_ACIAC)

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:	Aave_0823

Organism

Acidovorax avenae subsp. citrulli (strain AAC00-1) [Complete proteome] [HAMAP]

Taxonomic identifier

397945 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Betaproteobacteria › Burkholderiales › Comamonadaceae › Acidovorax

Protein attributes

Sequence length	334 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 – 334	334	D-alanine--D-alanine ligase HAMAP MF_00047		PRO_0000341044
Regions
	Domain	114 – 314	201	ATP-grasp
	Nucleotide binding	140 – 195	56	ATP By similarity
Sites
	Metal binding	267	1	Magnesium or manganese 1 By similarity
	Metal binding	281	1	Magnesium or manganese 1 By similarity
	Metal binding	281	1	Magnesium or manganese 2 By similarity
	Metal binding	283	1	Magnesium or manganese 2 By similarity

Sequences

	Sequence		Length	Mass (Da)
	A1TKD3-1 [UniParc]. Last modified February 6, 2007. Version 1. Checksum: FD262C90DC540D1A	FASTA	334	35,911
	10 20 30 40 50 60 MAAGLPETEI DVRALGKVAV LMGGDSAERE VSLMSGGGVL QALRARGVDA HAFDPSQSDL 70 80 90 100 110 120 SELKSHGYAR CFIALHGRHG EDGTVQGALE LLGIPYTGPG VMASAIAMDK IMTKRIWRFE 130 140 150 160 170 180 GLPTPDWRLV SSAAETAQAL EDLGSPMIVK PSREGSTIGL TKVTSPGQCE QAYRLASRYD 190 200 210 220 230 240 PEVLCEQFIE GEETTCPVLG QGAGAHALPV IRIVAPEGNY DYQNKYFTDV TQYHCPCGLP 250 260 270 280 290 300 EQEEREIQRL VVEAFRTLQC RGWARADIMI RASDRKPFLL EINTSPGMTG HSLVPMSARA 310 320 330 MGVSYEELCL RILAGASLDA RQGQVDAAGH PGAA

References

[1]

"Complete sequence of Acidovorax avenae subsp. citrulli AAC00-1." Copeland A., Lucas S., Lapidus A., Barry K., Detter J.C., Glavina del Rio T., Dalin E., Tice H., Pitluck S., Kiss H., Brettin T., Bruce D., Han C., Tapia R., Gilna P., Schmutz J., Larimer F., Land M. , Hauser L., Kyrpides N., Kim E., Stahl D., Richardson P. Submitted (DEC-2006) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].

Cross-references

Sequence databases
EMBLGenBankDDBJ	CP000512 Genomic DNA. Translation: ABM31421.1.
RefSeq	YP_969195.1.
3D structure databases
ModBase	Search...
Genome annotation databases
GeneID	4668635.
GenomeReviews	Gene locus Aave_0823 in contig CP000512_GR.
KEGG	aav:Aave_0823.
NMPDR	fig|397945.5.peg.714.
Organism-specific databases
CMR	Search...
Phylogenomic databases
OMA	A1TKD3. VPYTGSD.
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_ACIAC

Accession

Primary (citable) accession number: A1TKD3

Entry history

Integrated into UniProtKB/Swiss-Prot:	June 10, 2008
Last sequence update:	February 6, 2007
Last modified:	June 16, 2009
This is version 24 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)