Q47AA6 (DDL_DECAR) 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:	Daro_3496

Organism

Dechloromonas aromatica (strain RCB) [Complete proteome] [HAMAP]

Taxonomic identifier

159087 [NCBI]

Taxonomic lineage

cellular organisms › Bacteria › Proteobacteria › Betaproteobacteria › Rhodocyclales › Rhodocyclaceae › Dechloromonas › Dechloromonas aromatica

Protein attributes

Sequence length	301 AA.
Sequence status	Complete.
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-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.
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: 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: HAMAP D-alanine-D-alanine ligase activity Inferred from electronic annotation. Source: HAMAP magnesium ion binding Inferred from electronic annotation. Source: HAMAP manganese ion binding Inferred from electronic annotation. Source: HAMAP
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 HAMAP-Rule MF_00047		PRO_1000074773
Regions
	Domain	101 – 296	196	ATP-grasp
	Nucleotide binding	127 – 182	56	ATP By similarity
Sites
	Metal binding	250	1	Magnesium or manganese 1 By similarity
	Metal binding	263	1	Magnesium or manganese 1 By similarity
	Metal binding	263	1	Magnesium or manganese 2 By similarity
	Metal binding	265	1	Magnesium or manganese 2 By similarity

Sequences

	Sequence		Length	Mass (Da)
	Q47AA6 [UniParc]. Last modified September 13, 2005. Version 1. Checksum: CD836C0E09B8C579	FASTA	301	32,734
	10 20 30 40 50 60 MSSFGKVAVL FGGTSAEREV SLNSGSRVLA ALQGQGIDAH AFDPAEQPLD ALKGYDRAFI 70 80 90 100 110 120 ALHGRHGEDG TIQGALEVMH IPYTGSGVLA SALAMDKFRT KLMWRAAGLA IPEYALLTAD 130 140 150 160 170 180 SDFADIEEEL GLPLFVKPAR EGSSIGVTKV KERGALKAAY EEAARHDPLV IAEKGVMGGE 190 200 210 220 230 240 YTVGIIGDEA MPIIKIEPAT EWYDYEAKYN RDDTRYLCPC GLPEAKEMEI RKGALEAFRI 250 260 270 280 290 300 LGGRGWGRVD FLMDEDGKYY FLEVNTAPGM TDHSLVPMAA RVNGMDYPTL VRRVLELAAN D

References

[1]

"Complete sequence of Dechloromonas aromatica RCB." Copeland A., Lucas S., Lapidus A., Barry K., Detter J.C., Glavina T., Hammon N., Israni S., Pitluck S., Di Bartolo G., Trong S., Kellar K., Schmutz J., Larimer F., Land M., Ivanova N., Richardson P. Submitted (AUG-2005) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: RCB.

Cross-references

Sequence databases
EMBL GenBank DDBJ	CP000089 Genomic DNA. Translation: AAZ48225.1.
RefSeq	YP_286695.1. NC_007298.1.
3D structure databases
ProteinModelPortal	Q47AA6.
SMR	Q47AA6. Positions 5-299.
ModBase	Search...
Protein-protein interaction databases
STRING	159087.Daro_3496.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	AAZ48225; AAZ48225; Daro_3496.
GeneID	3567764.
KEGG	dar:Daro_3496.
PATRIC	21605664. VBIDecAro89105_3475.
Organism-specific databases
CMR	Search...
Phylogenomic databases
eggNOG	COG1181.
HOGENOM	HOG000011592.
KO	K01921.
OMA	GCRTWGR.
ProtClustDB	PRK01372.
Enzyme and pathway databases
BioCyc	DARO159087:GI5B-3575-MONOMER.
UniPathway	UPA00219.
Family and domain databases
Gene3D	3.30.1490.20. 1 hit. 3.30.470.20. 2 hits. 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. 2 hits. [Graphical view]
SUPFAM	SSF52440. PreATP-grasp-like. 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_DECAR

Accession

Primary (citable) accession number: Q47AA6

Entry history

Integrated into UniProtKB/Swiss-Prot:	May 20, 2008
Last sequence update:	September 13, 2005
Last modified:	May 1, 2013
This is version 64 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program