Reviewed, UniProtKB/Swiss-Prot A0ZZT4 (DDL_BIFAA)

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:	BAD_0186

Organism

Bifidobacterium adolescentis (strain ATCC 15703 / DSM 20083) [Complete proteome] [HAMAP]

Taxonomic identifier

367928 [NCBI]

Taxonomic lineage

Bacteria › Actinobacteria › Actinobacteridae › Bifidobacteriales › Bifidobacteriaceae › Bifidobacterium

Protein attributes

Sequence length	378 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 – 378	378	D-alanine--D-alanine ligase HAMAP MF_00047		PRO_1000030432
Regions
	Domain	149 – 374	226	ATP-grasp
	Nucleotide binding	189 – 247	59	ATP By similarity
Sites
	Metal binding	328	1	Magnesium or manganese 1 By similarity
	Metal binding	341	1	Magnesium or manganese 1 By similarity
	Metal binding	341	1	Magnesium or manganese 2 By similarity
	Metal binding	343	1	Magnesium or manganese 2 By similarity

Sequences

	Sequence		Length	Mass (Da)
	A0ZZT4-1 [UniParc]. Last modified January 23, 2007. Version 1. Checksum: BBDC4977384B8C56	FASTA	378	40,528
	10 20 30 40 50 60 MAKKRIVVMY GGKADEHSIS CISAASALRA LDTDKFEAIP VGITKDGKWI VNGENPLGWS 70 80 90 100 110 120 LDEGLPTVEK TPGAKDVVLE VALGQDGFFA REDDGTMTPF GHVDAVFPVL HGPYGEDGTI 130 140 150 160 170 180 QGLFEMMGVP YVGCGVLASA ACMDKHYTKV LLAAAGIPVA PGITLDARSF DKASEFKTDA 190 200 210 220 230 240 DAIMAQVSEA GLQYPLFVKP SRAGSSFGVT KVEHEGDAAE LAAAVYEASR HDWRILVEQG 250 260 270 280 290 300 IDAREIECAV LCPKAGEAPQ ASWPGEIVLD KRAEGDDQFY DFDSKYMDAA ASHVEVPANL 310 320 330 340 350 360 PEETLNLVRE TAKKAFVAVD GAGLSRVDTF VTKDGKVMVN EINTMPGFTS ISMYPKAWEA 370 TGVRYTDLIT KLIEGVLR

References

[1]	"Bifidobacterium adolescentis complete genome sequence." Suzuki T., Tsuda Y., Kanou N., Inoue T., Kumazaki K., Nagano S., Hirai S., Tanaka K., Watanabe K. Submitted (DEC-2006) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].

Cross-references

Sequence databases
EMBLGenBankDDBJ	AP009256 Genomic DNA. Translation: BAF38967.1.
RefSeq	YP_909049.1.
3D structure databases
ModBase	Search...
Genome annotation databases
GeneID	4556245.
GenomeReviews	Gene locus BAD_0186 in contig AP009256_GR.
KEGG	bad:BAD_0186.
NMPDR	fig|1680.3.peg.450.
Organism-specific databases
CMR	Search...
Phylogenomic databases
OMA	A0ZZT4. GREIECG.
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_BIFAA

Accession

Primary (citable) accession number: A0ZZT4

Entry history

Integrated into UniProtKB/Swiss-Prot:	January 15, 2008
Last sequence update:	January 23, 2007
Last modified:	June 16, 2009
This is version 22 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)