Reviewed, UniProtKB/Swiss-Prot O66806 (DDL_AQUAE)

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
Synonyms:	ddlA
Ordered Locus Names:	aq_521

Organism

Aquifex aeolicus [Complete proteome] [HAMAP]

Taxonomic identifier

63363 [NCBI]

Taxonomic lineage

Bacteria › Aquificae › Aquificales › Aquificaceae › Aquifex

Protein attributes

Sequence length	291 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 – 291	291	D-alanine--D-alanine ligase HAMAP MF_00047		PRO_0000177780
Regions
	Domain	99 – 291	193	ATP-grasp
	Nucleotide binding	125 – 179	55	ATP By similarity
Sites
	Metal binding	245	1	Magnesium or manganese 1 By similarity
	Metal binding	258	1	Magnesium or manganese 1 By similarity
	Metal binding	258	1	Magnesium or manganese 2 By similarity
	Metal binding	260	1	Magnesium or manganese 2 By similarity

Sequences

	Sequence		Length	Mass (Da)
	O66806-1 [UniParc]. Last modified August 1, 1998. Version 1. Checksum: B0A892F15539C143	FASTA	291	32,797
	10 20 30 40 50 60 MRVVVLMGGR SSEREISLKT GKAVAKALRE LGHEVYELDL DKELPCKLLE IKPDKVFIAL 70 80 90 100 110 120 HGRYGEDGTV QGLLEILDIP YTGSDTIASA VSIDKDFTKR IVKSLGINTP DWETFISEGD 130 140 150 160 170 180 VLNTEWNKFP AVVKPVREGS SVGLKIVESL EELKEYALDL LKKTERVMVE EFVEGRDMTV 190 200 210 220 230 240 GILKGEALPV VEIIPKKGVY DYECKYTKGM SEYRILKDEK LSKKLQEISL KISKFLSLKD 250 260 270 280 290 FARIDFRVTK EGKIFFLEVN TIPGMTELSL LPMAAKEKGM DFKKLISIII T

References

[1]

"The complete genome of the hyperthermophilic bacterium Aquifex aeolicus." Deckert G., Warren P.V., Gaasterland T., Young W.G., Lenox A.L., Graham D.E., Overbeek R., Snead M.A., Keller M., Aujay M., Huber R., Feldman R.A., Short J.M., Olsen G.J., Swanson R.V. Nature 392:353-358(1998) [PubMed: 9537320] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: VF5.

Cross-references

Sequence databases
EMBLGenBankDDBJ	AE000657 Genomic DNA. Translation: AAC06765.1.
PIR	B70347.
RefSeq	NP_213366.1.
3D structure databases
HSSP	HSSP built from PDB template 1IOV based on UniProtKB P07862.
ModBase	Search...
Genome annotation databases
GeneID	1193224.
GenomeReviews	Gene locus aq_521 in contig AE000657_GR.
KEGG	aae:aq_521.
NMPDR	fig|224324.1.peg.381.
Organism-specific databases
CMR	Search...
Phylogenomic databases
HOGENOM	O66806.
OMA	O66806. RSDFRWD.
Enzyme and pathway databases
BioCyc	AAEO224324:AQ_521-MON.
BRENDA	6.3.2.4. 189781.
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_AQUAE

Accession

Primary (citable) accession number: O66806

Entry history

Integrated into UniProtKB/Swiss-Prot:	May 30, 2000
Last sequence update:	August 1, 1998
Last modified:	June 16, 2009
This is version 67 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)