Reviewed, UniProtKB/Swiss-Prot Q8PDW3 (DDLA_XANCP)

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
Synonyms:	ddlB
Ordered Locus Names:	XCC0222

Organism

Xanthomonas campestris pv. campestris [Complete proteome] [HAMAP]

Taxonomic identifier

340 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Gammaproteobacteria › Xanthomonadales › Xanthomonadaceae › Xanthomonas

Protein attributes

Sequence length	373 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 – 373	373	D-alanine--D-alanine ligase A HAMAP MF_00047		PRO_0000177908
Regions
	Domain	150 – 353	204	ATP-grasp
	Nucleotide binding	180 – 235	56	ATP By similarity
Sites
	Metal binding	307	1	Magnesium or manganese 1 By similarity
	Metal binding	320	1	Magnesium or manganese 1 By similarity
	Metal binding	320	1	Magnesium or manganese 2 By similarity
	Metal binding	322	1	Magnesium or manganese 2 By similarity

Sequences

	Sequence		Length	Mass (Da)
	Q8PDW3-1 [UniParc]. Last modified October 1, 2002. Version 1. Checksum: 01E285702AF9D15F	FASTA	373	40,110
	10 20 30 40 50 60 MTGAGMRRIR VGLIFGGKSA EHEVSLQSAR NILQALDPQR FEPVLIGIDK QGQWHLSAQE 70 80 90 100 110 120 SFLLDADDPS RIALRHSGRG LAVLPGAASA QLRAVDAEQA LAQIDVVFPI VHGTLGEDGS 130 140 150 160 170 180 LQGLLRMANL PFVGSGVLGS AVAMDKDMAK RVLRDAGLEV APFACFTRHT AAQADVQTLI 190 200 210 220 230 240 AQFGLPLFVK PANQGSSVGV SQVRSAEEFS AALELALRYD HKVLVEAAIA GREIECAVLG 250 260 270 280 290 300 NATPQASVCG EVVVHDAFYS YQTKYIRDDG AATVIPADID AHTQHRIQQC ALQAYQALDC 310 320 330 340 350 360 AGMARVDVFL CADGRIVINE VNTLPGFTRI SMYPKLWEAS GLDYRSLVTR LIELALERHA 370 DDGRLYSSVV THA

References

[1]

"Comparison of the genomes of two Xanthomonas pathogens with differing host specificities." da Silva A.C.R., Ferro J.A., Reinach F.C., Farah C.S., Furlan L.R., Quaggio R.B., Monteiro-Vitorello C.B., Van Sluys M.A., Almeida N.F. Jr., Alves L.M.C., do Amaral A.M., Bertolini M.C., Camargo L.E.A., Camarotte G., Cannavan F., Cardozo J., Chambergo F., Ciapina L.P. , Cicarelli R.M.B., Coutinho L.L., Cursino-Santos J.R., El-Dorry H., Faria J.B., Ferreira A.J.S., Ferreira R.C.C., Ferro M.I.T., Formighieri E.F., Franco M.C., Greggio C.C., Gruber A., Katsuyama A.M., Kishi L.T., Leite R.P., Lemos E.G.M., Lemos M.V.F., Locali E.C., Machado M.A., Madeira A.M.B.N., Martinez-Rossi N.M., Martins E.C., Meidanis J., Menck C.F.M., Miyaki C.Y., Moon D.H., Moreira L.M., Novo M.T.M., Okura V.K., Oliveira M.C., Oliveira V.R., Pereira H.A., Rossi A., Sena J.A.D., Silva C., de Souza R.F., Spinola L.A.F., Takita M.A., Tamura R.E., Teixeira E.C., Tezza R.I.D., Trindade dos Santos M., Truffi D., Tsai S.M., White F.F., Setubal J.C., Kitajima J.P. Nature 417:459-463(2002) [PubMed: 12024217] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 33913 / NCPPB 528 / LMG 568.

Cross-references

Sequence databases
EMBLGenBankDDBJ	AE012118 Genomic DNA. Translation: AAM39541.1.
RefSeq	NP_635617.2.
3D structure databases
HSSP	HSSP built from PDB template 1E4E based on UniProtKB P25051.
ModBase	Search...
Genome annotation databases
GeneID	999929.
GenomeReviews	Gene locus XCC0222 in contig AE008922_GR.
KEGG	xcc:XCC0222.
Organism-specific databases
CMR	Search...
Phylogenomic databases
HOGENOM	Q8PDW3.
OMA	Q8PDW3. GREIECG.
Enzyme and pathway databases
BioCyc	XCAM190485:XCC0222-MON.
BRENDA	6.3.2.4. 281360.
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

DDLA_XANCP

Accession

Primary (citable) accession number: Q8PDW3

Entry history

Integrated into UniProtKB/Swiss-Prot:	December 15, 2003
Last sequence update:	October 1, 2002
Last modified:	June 16, 2009
This is version 45 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)