Reviewed, UniProtKB/Swiss-Prot A0KKW8 (DDL_AERHH)

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:	AHA_2404

Organism

Aeromonas hydrophila subsp. hydrophila (strain ATCC 7966 / NCIB 9240) [Complete proteome] [HAMAP]

Taxonomic identifier

380703 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Gammaproteobacteria › Aeromonadales › Aeromonadaceae › Aeromonas

Protein attributes

Sequence length	329 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 – 329	329	D-alanine--D-alanine ligase HAMAP MF_00047		PRO_1000030422
Regions
	Domain	120 – 326	207	ATP-grasp
	Nucleotide binding	150 – 205	56	ATP By similarity
Sites
	Metal binding	280	1	Magnesium or manganese 1 By similarity
	Metal binding	293	1	Magnesium or manganese 1 By similarity
	Metal binding	293	1	Magnesium or manganese 2 By similarity
	Metal binding	295	1	Magnesium or manganese 2 By similarity

Sequences

	Sequence		Length	Mass (Da)
	A0KKW8-1 [UniParc]. Last modified December 12, 2006. Version 1. Checksum: BC5B5747304BD548	FASTA	329	36,343
	10 20 30 40 50 60 MKNIHVLLLC GGGGSEHEVS LRSANFLEKQ LSLLPGVEVT RVEMFADRWL SADGRECKLG 70 80 90 100 110 120 LDKLLSFDSV ARPVDYVVPC IHGYPGETGD LQSFLELAGL PYLGCDAEAS KICFNKISTK 130 140 150 160 170 180 LWLSAIGIPN TPYLFLTEQN DAALSEAKAA LAKWGKVFIK AASQGSSVGC YSASNEADLV 190 200 210 220 230 240 KGIADAFGYS EQVLIEKAVK PRELEVAVYQ YGDELVATYP GEICVPQDKF YTYEEKYSSA 250 260 270 280 290 300 SHTETALRAE GLTQAQADAI HEYALKAFRQ LKLTHLSRID FFLTEEGEIL LNEINTFPGM 310 320 TSISMFPKLL EHHGHRFADY LEQILRKAV

References

[1]

"Genome sequence of Aeromonas hydrophila ATCC 7966T: jack of all trades." Seshadri R., Joseph S.W., Chopra A.K., Sha J., Shaw J., Graf J., Haft D.H., Wu M., Ren Q., Rosovitz M.J., Madupu R., Tallon L., Kim M., Jin S., Vuong H., Stine O.C., Ali A., Horneman A.J., Heidelberg J.F. J. Bacteriol. 188:8272-8282(2006) [PubMed: 16980456] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].

Cross-references

Sequence databases
EMBLGenBankDDBJ	CP000462 Genomic DNA. Translation: ABK38135.1.
RefSeq	YP_856919.1.
3D structure databases
ModBase	Search...
Genome annotation databases
GeneID	4488463.
GenomeReviews	Gene locus AHA_2404 in contig CP000462_GR.
KEGG	aha:AHA_2404.
TIGR	AHA_2404.
Phylogenomic databases
OMA	A0KKW8. 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. [Graphical view]
Gene3D	G3DSA:3.30.470.20. ATP_grasp_subdomain_2. 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_AERHH

Accession

Primary (citable) accession number: A0KKW8

Entry history

Integrated into UniProtKB/Swiss-Prot:	January 15, 2008
Last sequence update:	December 12, 2006
Last modified:	June 16, 2009
This is version 23 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)