B4ETX3 (DDL_PROMH) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
D-alanine--D-alanine ligase
EC=6.3.2.4

Alternative name(s):
D-Ala-D-Ala ligase
D-alanylalanine synthetase

Gene names

Name:	ddl
Ordered Locus Names:	PMI1243

Organism

Proteus mirabilis (strain HI4320) [Complete proteome] [HAMAP]

Taxonomic identifier

529507 [NCBI]

Taxonomic lineage

cellular organisms › Bacteria › Proteobacteria › Gammaproteobacteria › Enterobacteriales › Enterobacteriaceae › Proteus › Proteus mirabilis

Protein attributes

Sequence length	366 AA.
Sequence status	Complete.
Protein existence	Inferred from homology

General annotation (Comments)

Function	Cell wall formation By similarity. HAMAP-Rule MF_00047
Catalytic activity	ATP + 2 D-alanine = ADP + phosphate + D-alanyl-D-alanine. HAMAP-Rule MF_00047
Cofactor	Binds 2 magnesium or manganese ions per subunit By similarity.
Pathway	Cell wall biogenesis; peptidoglycan biosynthesis. HAMAP-Rule MF_00047
Subcellular location	Cytoplasm By similarity HAMAP-Rule 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	peptidoglycan biosynthetic process Inferred from electronic annotation. Source: UniProtKB-HAMAP regulation of cell shape Inferred from electronic annotation. Source: UniProtKB-KW
Cellular_component	cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular_function	ATP binding Inferred from electronic annotation. Source: UniProtKB-HAMAP D-alanine-D-alanine ligase activity Inferred from electronic annotation. Source: UniProtKB-HAMAP magnesium ion binding Inferred from electronic annotation. Source: UniProtKB-HAMAP manganese ion binding Inferred from electronic annotation. Source: UniProtKB-HAMAP
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 366	366	D-alanine--D-alanine ligase HAMAP-Rule MF_00047		PRO_1000091204
Regions
	Domain	145 – 348	204	ATP-grasp
	Nucleotide binding	175 – 230	56	ATP By similarity
Sites
	Metal binding	302	1	Magnesium or manganese 1 By similarity
	Metal binding	315	1	Magnesium or manganese 1 By similarity
	Metal binding	315	1	Magnesium or manganese 2 By similarity
	Metal binding	317	1	Magnesium or manganese 2 By similarity

Sequences

	Sequence		Length	Mass (Da)
	B4ETX3 [UniParc]. Last modified September 23, 2008. Version 1. Checksum: 4DA7300C3D6C4186	FASTA	366	40,299
	10 20 30 40 50 60 MSKLRVAIIF GGKSTEHQVS LQSAKNIINE LDRTKFDLCL IGINEQGQWH EYAEDNYLIN 70 80 90 100 110 120 SDNPSTISLS QPLRPVAIIP GSTRQQFISL TDGQPLAQID VVFPIVHGAY GEDGTLQGLL 130 140 150 160 170 180 HMIDMPYVGP NIMSSAACMD KDITKRLLDD AGLAVAPFIT LMAHQLNDIS YNEVVEQLGL 190 200 210 220 230 240 PLFIKPANLG SSVGISKVNN EAEFNAALSM AFEYDLKVII ESAIVGREIE CAVLGNEEPE 250 260 270 280 290 300 VSPCGEIVLN DAFYAYNTKY IDDDGAKVVV PADLDNAISL HIRQTALKAY QVLNCLGMSR 310 320 330 340 350 360 VDVFLTEDNQ VIINEINTLP GFTNISMYPK LWQSTGLDYQ SLITKLIELA LEHHKKTAVL KTKCEL

References

[1]

"Complete genome sequence of uropathogenic Proteus mirabilis, a master of both adherence and motility." Pearson M.M., Sebaihia M., Churcher C., Quail M.A., Seshasayee A.S., Luscombe N.M., Abdellah Z., Arrosmith C., Atkin B., Chillingworth T., Hauser H., Jagels K., Moule S., Mungall K., Norbertczak H., Rabbinowitsch E., Walker D., Whithead S. , Thomson N.R., Rather P.N., Parkhill J., Mobley H.L.T. J. Bacteriol. 190:4027-4037(2008) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: HI4320.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AM942759 Genomic DNA. Translation: CAR42650.1.
RefSeq	YP_002150974.1. NC_010554.1.
3D structure databases
ProteinModelPortal	B4ETX3.
ModBase	Search...
Protein-protein interaction databases
STRING	529507.PMI1243.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	CAR42650; CAR42650; PMI1243.
GeneID	6800335.
KEGG	pmr:PMI1243.
PATRIC	20517117. VBIProMir120933_1196.
Organism-specific databases
CMR	Search...
Phylogenomic databases
eggNOG	COG1181.
HOGENOM	HOG000011593.
KO	K01921.
OMA	MDKIAMK.
OrthoDB	EOG64BQ73.
Enzyme and pathway databases
BioCyc	PMIR529507:GJIW-1251-MONOMER.
UniPathway	UPA00219.
Family and domain databases
Gene3D	3.30.1490.20. 1 hit. 3.30.470.20. 1 hit. 3.40.50.20. 1 hit.
HAMAP	MF_00047. Dala_Dala_lig.
InterPro	IPR011761. ATP-grasp. IPR013815. ATP_grasp_subdomain_1. 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. IPR016185. PreATP-grasp_dom. [Graphical view]
PANTHER	PTHR23132. PTHR23132. 1 hit.
Pfam	PF07478. Dala_Dala_lig_C. 1 hit. PF01820. Dala_Dala_lig_N. 1 hit. [Graphical view]
SUPFAM	SSF52440. SSF52440. 1 hit.
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_PROMH

Accession

Primary (citable) accession number: B4ETX3

Entry history

Integrated into UniProtKB/Swiss-Prot:	March 24, 2009
Last sequence update:	September 23, 2008
Last modified:	November 13, 2013
This is version 41 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program