Reviewed, UniProtKB/Swiss-Prot Q8XKS9 (DDLA_CLOPE)

Names and origin

Protein names

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

Gene names

Name:	ddlA
Ordered Locus Names:	CPE1315

Organism

Clostridium perfringens [Complete proteome] [HAMAP]

Taxonomic identifier

1502 [NCBI]

Taxonomic lineage

Bacteria › Firmicutes › Clostridia › Clostridiales › Clostridiaceae › Clostridium

Protein attributes

Sequence length	301 AA.
Sequence status	Complete.
Protein existence	Inferred from homology.

General annotation (Comments)

Function	Cell wall formation By similarity. HAMAP MF_00047
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. HAMAP MF_00047
Pathway	Cell wall biogenesis; peptidoglycan biosynthesis. HAMAP MF_00047
Subcellular location	Cytoplasm By similarity HAMAP MF_00047.
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	cellular 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 – 301	301	D-alanine--D-alanine ligase A HAMAP MF_00047		PRO_0000177807
Regions
	Domain	99 – 293	195	ATP-grasp
	Nucleotide binding	126 – 181	56	ATP By similarity
Sites
	Metal binding	248	1	Magnesium or manganese 1 By similarity
	Metal binding	260	1	Magnesium or manganese 1 By similarity
	Metal binding	260	1	Magnesium or manganese 2 By similarity
	Metal binding	262	1	Magnesium or manganese 2 By similarity

Sequences

	Sequence		Length	Mass (Da)
	Q8XKS9-1 [UniParc]. Last modified March 1, 2002. Version 1. Checksum: A3CA41C8E5C080AD	FASTA	301	33,182
	10 20 30 40 50 60 MKVGVIMGGI SSEREISIQS GNSVVHALDK DKYEAIPIVL NEKEDLIEKV KGIDFALLAL 70 80 90 100 110 120 HGKFGEDGTV QSVLKTLGIP FSGCGPLSSA ICMDKDMTKR ILAFGNVRTA RWEMVSSVDE 130 140 150 160 170 180 IDYEKIENLG YPVFVKPNNG GSSVATTLVE SKEAVKDAVL EALKYDTEVM IEEYIKGDEI 190 200 210 220 230 240 TCPIIDGKML PVLAIKPKGK FFDIASKYGD GGADEFIVEL NEDLHKEVEK MALETYKLLK 250 260 270 280 290 300 CDVYARVDML VKDNIPYVLE VNTLPGMTKN SLFPKSAAGI NMSFEELLDT IIEKSLKVNR E

References

[1]

"Complete genome sequence of Clostridium perfringens, an anaerobic flesh-eater." Shimizu T., Ohtani K., Hirakawa H., Ohshima K., Yamashita A., Shiba T., Ogasawara N., Hattori M., Kuhara S., Hayashi H. Proc. Natl. Acad. Sci. U.S.A. 99:996-1001(2002) [PubMed: 11792842] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: 13 / Type A.

Cross-references

Sequence databases
EMBL GenBank DDBJ	BA000016 Genomic DNA. Translation: BAB81021.1.
RefSeq	NP_562231.1.
3D structure databases
SMR	Q8XKS9. Positions 2-294.
ModBase	Search...
Genome annotation databases
GeneID	989624.
GenomeReviews	Gene locus CPE1315 in contig BA000016_GR.
KEGG	cpe:CPE1315.
NMPDR	fig|195102.1.peg.1378.
Organism-specific databases
CMR	Search...
Phylogenomic databases
HOGENOM	HBG427092.
OMA	GDEITCP.
PhylomeDB	Q8XKS9.
Enzyme and pathway databases
BioCyc	CPER195102:CPE1315-MONOMER.
BRENDA	6.3.2.4. 2406.
Family and domain databases
HAMAP	MF_00047. Dala_Dala_lig. [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. IPR016185. PreATP-grasp-like. [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. 2 hits. [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

DDLA_CLOPE

Accession

Primary (citable) accession number: Q8XKS9

Entry history

Integrated into UniProtKB/Swiss-Prot:	December 15, 2003
Last sequence update:	March 1, 2002
Last modified:	February 9, 2010
This is version 53 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)