Reviewed, UniProtKB/Swiss-Prot Q87XJ6 (DDLA_PSESM)

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:	PSPTO_4182

Organism

Pseudomonas syringae pv. tomato [Complete proteome] [HAMAP]

Taxonomic identifier

323 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Gammaproteobacteria › Pseudomonadales › Pseudomonadaceae › Pseudomonas

Protein attributes

Sequence length	363 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 – 363	363	D-alanine--D-alanine ligase A HAMAP MF_00047		PRO_0000177859
Regions
	Domain	144 – 345	202	ATP-grasp
	Nucleotide binding	172 – 227	56	ATP By similarity
Sites
	Metal binding	299	1	Magnesium or manganese 1 By similarity
	Metal binding	312	1	Magnesium or manganese 1 By similarity
	Metal binding	312	1	Magnesium or manganese 2 By similarity
	Metal binding	314	1	Magnesium or manganese 2 By similarity

Sequences

	Sequence		Length	Mass (Da)
	Q87XJ6-1 [UniParc]. Last modified June 1, 2003. Version 1. Checksum: 8E9772ACDAB380FF	FASTA	363	38,948
	10 20 30 40 50 60 MKKSVAIVFG GQSSEHEVSL QSARNVINAI DRESYALTLI GVDKLGRWLR FDEADYLLNA 70 80 90 100 110 120 NDPARIKLSG SGKQLSLLPG SVGGQFVEVE SGKPLAAIDV VFPLIHGAFG EDGALQGLLR 130 140 150 160 170 180 MLAVPFVGAD VLASAACMDK DVTKRLLRDA GIAVAPFMVL NRGESLSFAQ AAAQLSLPMF 190 200 210 220 230 240 VKPANQGSSV GVSKVSDEAG FAAALALGFE FDHKLLIEQG IVGREVECAV LGNDEAQVSV 250 260 270 280 290 300 CGEVVANDEF YAYDTKYLNG DQARIAIPAE LPADLSDQVR DVALQAYKVL GCAGLSRVDF 310 320 330 340 350 360 FVTEAREIII NEVNTLPGFT SISMYPKLWQ ATGLSYAELI HRLIVLALER ADEARLLKRD IFA

References

[1]

"The complete genome sequence of the Arabidopsis and tomato pathogen Pseudomonas syringae pv. tomato DC3000." Buell C.R., Joardar V., Lindeberg M., Selengut J., Paulsen I.T., Gwinn M.L., Dodson R.J., DeBoy R.T., Durkin A.S., Kolonay J.F., Madupu R., Daugherty S.C., Brinkac L.M., Beanan M.J., Haft D.H., Nelson W.C., Davidsen T.M., Zafar N. , Zhou L., Liu J., Yuan Q., Khouri H.M., Fedorova N.B., Tran B., Russell D., Berry K.J., Utterback T.R., Van Aken S.E., Feldblyum T.V., D'Ascenzo M., Deng W.-L., Ramos A.R., Alfano J.R., Cartinhour S., Chatterjee A.K., Delaney T.P., Lazarowitz S.G., Martin G.B., Schneider D.J., Tang X., Bender C.L., White O., Fraser C.M., Collmer A. Proc. Natl. Acad. Sci. U.S.A. 100:10181-10186(2003) [PubMed: 12928499] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: DC3000.

Cross-references

Sequence databases
EMBLGenBankDDBJ	AE016853 Genomic DNA. Translation: AAO57638.1.
RefSeq	NP_793943.1.
3D structure databases
HSSP	HSSP built from PDB template 1E4E based on UniProtKB P25051.
ModBase	Search...
Genome annotation databases
GeneID	1185862.
GenomeReviews	Gene locus PSPTO_4182 in contig AE016853_GR.
KEGG	pst:PSPTO_4182.
NMPDR	fig|223283.1.peg.4081.
TIGR	PSPTO_4182.
Phylogenomic databases
HOGENOM	Q87XJ6.
OMA	GREIECG.
Enzyme and pathway databases
BioCyc	PSYR223283:PSPTO_4182-MON.
BRENDA	6.3.2.4. 289554.
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_PSESM

Accession

Primary (citable) accession number: Q87XJ6

Entry history

Integrated into UniProtKB/Swiss-Prot:	December 15, 2003
Last sequence update:	June 1, 2003
Last modified:	November 3, 2009
This is version 50 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)