Reviewed, UniProtKB/Swiss-Prot B0CEL5 (DDL_ACAM1)

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:	AM1_3124

Organism

Acaryochloris marina (strain MBIC 11017) [Complete proteome] [HAMAP]

Taxonomic identifier

329726 [NCBI]

Taxonomic lineage

Bacteria › Cyanobacteria › Acaryochloris

Protein attributes

Sequence length	352 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 – 352	352	D-alanine--D-alanine ligase HAMAP MF_00047		PRO_0000341042
Regions
	Domain	133 – 342	210	ATP-grasp
	Nucleotide binding	169 – 224	56	ATP By similarity
Sites
	Metal binding	295	1	Magnesium or manganese 1 By similarity
	Metal binding	309	1	Magnesium or manganese 1 By similarity
	Metal binding	309	1	Magnesium or manganese 2 By similarity
	Metal binding	311	1	Magnesium or manganese 2 By similarity

Sequences

	Sequence		Length	Mass (Da)
	B0CEL5-1 [UniParc]. Last modified February 26, 2008. Version 1. Checksum: 1C6DC84ABC2567CB	FASTA	352	38,146
	10 20 30 40 50 60 MEKLRVGLVF GGCSGEHEVS ITSAKAVCGA LQTAPNPDKY EVIPFYIHKN GCWQAGEVAN 70 80 90 100 110 120 QVLEMGKPQD QAEEGSRWHF PEAAASIDVW FPILHGPNGE DGTIQGLLQL MQVPYVGSGV 130 140 150 160 170 180 LGSAAGMDKI AMKTVFAAAG LPQVKYESVT REQVWSDPCV FKQVCDRIDE TIGYPNFVKP 190 200 210 220 230 240 ANLGSSVGIS KVRSRLELEA ALDSAASFDR RIVVEAGVVA REVECAVLGN GRPRASVVGE 250 260 270 280 290 300 ISFDSDFYDY ETKYTEGRAS LQIPAPLPAD ITEKIQEMAI NAFIAVDAAG LSRVDFFYVE 310 320 330 340 350 STGEVLINEI NTLPGFTSTS MYPMLWSVSG VDFPKLVDRL IQLAVEYHAP AD

References

[1]

"Niche adaptation and genome expansion in the chlorophyll d-producing cyanobacterium Acaryochloris marina." Swingley W.D., Chen M., Cheung P.C., Conrad A.L., Dejesa L.C., Hao J., Honchak B.M., Karbach L.E., Kurdoglu A., Lahiri S., Mastrian S.D., Miyashita H., Page L., Ramakrishna P., Satoh S., Sattley W.M., Shimada Y., Taylor H.L. , Tomo T., Tsuchiya T., Wang Z.T., Raymond J., Mimuro M., Blankenship R.E., Touchman J.W. Proc. Natl. Acad. Sci. U.S.A. 105:2005-2010(2008) [PubMed: 18252824] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].

Cross-references

Sequence databases
EMBLGenBankDDBJ	CP000828 Genomic DNA. Translation: ABW28120.1.
RefSeq	YP_001517436.1.
3D structure databases
ModBase	Search...
Genome annotation databases
GeneID	5681932.
GenomeReviews	Gene locus AM1_3124 in contig CP000828_GR.
KEGG	amr:AM1_3124.
Organism-specific databases
CMR	Search...
Phylogenomic databases
OMA	B0CEL5. 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_ACAM1

Accession

Primary (citable) accession number: B0CEL5

Entry history

Integrated into UniProtKB/Swiss-Prot:	June 10, 2008
Last sequence update:	February 26, 2008
Last modified:	June 16, 2009
This is version 12 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)