Reviewed, UniProtKB/Swiss-Prot Q5PBK2 (DDL_ANAMM)

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:	AM205

Organism

Anaplasma marginale (strain St. Maries) [Complete proteome] [HAMAP]

Taxonomic identifier

234826 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Alphaproteobacteria › Rickettsiales › Anaplasmataceae › Anaplasma

Protein attributes

Sequence length	334 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 – 334	334	D-alanine--D-alanine ligase HAMAP MF_00047		PRO_0000341052
Regions
	Domain	110 – 306	197	ATP-grasp
	Nucleotide binding	138 – 190	53	ATP By similarity
Sites
	Metal binding	258	1	Magnesium or manganese 1 By similarity
	Metal binding	272	1	Magnesium or manganese 1 By similarity
	Metal binding	272	1	Magnesium or manganese 2 By similarity
	Metal binding	274	1	Magnesium or manganese 2 By similarity

Sequences

	Sequence		Length	Mass (Da)
	Q5PBK2-1 [UniParc]. Last modified January 4, 2005. Version 1. Checksum: 223FB0FC1F3F40AF	FASTA	334	36,433
	10 20 30 40 50 60 MPVSLARNAG MLSVAVLCGG SSPEREVSLA GGKRVADALG RLGYNATVLD LNRESVGQLL 70 80 90 100 110 120 AMAPDLVYNA LHGVQGEDGC VSGLLDILGL ACTHSHVAAS SVGMDKVLTK HVLKSLGIDF 130 140 150 160 170 180 PKFDVLTKEE LLSAKEVLPY PFVIKPVRGG STIGVHAIFS KSEYLDLSAH ADTLEDRMIV 190 200 210 220 230 240 EEYVSGQEVQ TAVFLGRAIG TMELLFEGRI YSYDAKYVEG LCEHIFPANL PYDIYNLTLE 250 260 270 280 290 300 WALKLHQCLG CKTLSRVDFR YDVANKALKL LEINTHPGMT VSSTLPEVLW LRCGLNFDHV 310 320 330 VDLIVQDALG IDDSRRAYID ELMGKTVSRE PSHV

References

[1]

"Complete genome sequencing of Anaplasma marginale reveals that the surface is skewed to two superfamilies of outer membrane proteins." Brayton K.A., Kappmeyer L.S., Herndon D.R., Dark M.J., Tibbals D.L., Palmer G.H., McGuire T.C., Knowles D.P. Jr. Proc. Natl. Acad. Sci. U.S.A. 102:844-849(2005) [PubMed: 15618402] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].

Cross-references

Sequence databases
EMBLGenBankDDBJ	CP000030 Genomic DNA. Translation: AAV86327.1.
RefSeq	YP_153582.1.
3D structure databases
ModBase	Search...
Genome annotation databases
GeneID	3171882.
GenomeReviews	Gene locus AM205 in contig CP000030_GR.
KEGG	ama:AM205.
Organism-specific databases
CMR	Search...
Phylogenomic databases
HOGENOM	Q5PBK2.
OMA	Q5PBK2. VNDGWYD.
Enzyme and pathway databases
BioCyc	AMAR234826:AM205-MON.
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. False negative. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

DDL_ANAMM

Accession

Primary (citable) accession number: Q5PBK2

Entry history

Integrated into UniProtKB/Swiss-Prot:	June 10, 2008
Last sequence update:	January 4, 2005
Last modified:	June 16, 2009
This is version 47 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)