Reviewed, UniProtKB/Swiss-Prot A1R7J5 (DDL_ARTAT)

Names and origin

Protein names

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

Gene names

Name:	ddl
Ordered Locus Names:	AAur_2481

Organism

Arthrobacter aurescens (strain TC1) [Complete proteome] [HAMAP]

Taxonomic identifier

290340 [NCBI]

Taxonomic lineage

Bacteria › Actinobacteria › Actinobacteridae › Actinomycetales › Micrococcineae › Micrococcaceae › Arthrobacter

Protein attributes

Sequence length	378 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 – 378	378	D-alanine--D-alanine ligase HAMAP MF_00047		PRO_0000341053
Regions
	Domain	157 – 368	212	ATP-grasp
	Nucleotide binding	189 – 244	56	ATP By similarity
Sites
	Metal binding	322	1	Magnesium or manganese 1 By similarity
	Metal binding	335	1	Magnesium or manganese 1 By similarity
	Metal binding	335	1	Magnesium or manganese 2 By similarity
	Metal binding	337	1	Magnesium or manganese 2 By similarity

Sequences

	Sequence		Length	Mass (Da)
	A1R7J5-1 [UniParc]. Last modified February 6, 2007. Version 1. Checksum: 912B80574B38828F	FASTA	378	39,981
	10 20 30 40 50 60 MVTDHSTPVT GRPRVAILFG GRSSEHAVSC VTAAGVMGAI DKNKYEVIPI GIAKSGQWVL 70 80 90 100 110 120 ASGDTSEWSL SSAALPEVAP SGRTVTLAEV GGEHQLIVTE PNAVPQELGS VDVVFPLLHG 130 140 150 160 170 180 PWGEDGTIQG LLELSDTRYV GAGVLASAVG MDKHFMKVVF ESAGLSVGPY VAVTDREWST 190 200 210 220 230 240 DAEAVRKRVD KLGFPVFVKP ARAGSSMGIS KVDSMEGLDA AIDEARRHDL KLVIEAGIVG 250 260 270 280 290 300 REIECAVLQG RGTDAPRTSM PGEIAVAVGE HQFYDFAAKY VEDGAAALSC PADMPDEAIA 310 320 330 340 350 360 RVRELAAVAF DAVGAEGLSR VDFFYTPAGE LIINEINTMP GFTPKSMYPQ MWAASGLAYG 370 DLIDELIHLA LTRKTGLR

References

[1]

"Secrets of soil survival revealed by the genome sequence of Arthrobacter aurescens TC1." Mongodin E.F., Shapir N., Daugherty S.C., DeBoy R.T., Emerson J.B., Shvartzbeyn A., Radune D., Vamathevan J., Riggs F., Grinberg V., Khouri H.M., Wackett L.P., Nelson K.E., Sadowsky M.J. PLoS Genet. 2:2094-2106(2006) [PubMed: 17194220] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].

Cross-references

Sequence databases
EMBLGenBankDDBJ	CP000474 Genomic DNA. Translation: ABM07506.1.
RefSeq	YP_948207.1.
3D structure databases
ModBase	Search...
Genome annotation databases
GeneID	4640348.
GenomeReviews	Gene locus AAur_2481 in contig CP000474_GR.
KEGG	aau:AAur_2481.
TIGR	AAur_2481.
Phylogenomic databases
OMA	A1R7J5. GREIECG.
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

DDL_ARTAT

Accession

Primary (citable) accession number: A1R7J5

Entry history

Integrated into UniProtKB/Swiss-Prot:	June 10, 2008
Last sequence update:	February 6, 2007
Last modified:	June 16, 2009
This is version 25 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)