B9DUS0 (DDL_STRU0) 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:	SUB1257

Organism

Streptococcus uberis (strain ATCC BAA-854 / 0140J) [Complete proteome] [HAMAP]

Taxonomic identifier

218495 [NCBI]

Taxonomic lineage

cellular organisms › Bacteria › Firmicutes › Bacilli › Lactobacillales › Streptococcaceae › Streptococcus › Streptococcus uberis

Protein attributes

Sequence length	348 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 – 348	348	D-alanine--D-alanine ligase HAMAP-Rule MF_00047		PRO_1000189751
Regions
	Domain	132 – 334	203	ATP-grasp
	Nucleotide binding	162 – 217	56	ATP By similarity
Sites
	Metal binding	288	1	Magnesium or manganese 1 By similarity
	Metal binding	301	1	Magnesium or manganese 1 By similarity
	Metal binding	301	1	Magnesium or manganese 2 By similarity
	Metal binding	303	1	Magnesium or manganese 2 By similarity

Sequences

	Sequence		Length	Mass (Da)
	B9DUS0 [UniParc]. Last modified March 24, 2009. Version 1. Checksum: FF8BDAFED54C80BB	FASTA	348	38,628
	10 20 30 40 50 60 MSKQTIVLLY GGRSAEREVS VLSAESVMRA INYDKFHVKT YFISQAGDFY KTQEFTVQPS 70 80 90 100 110 120 ESEKLMTNAS LDASLKIKAS DIYEDKAVVF PLLHGPMGED GSIQGFLEIL KMPYVGTNIL 130 140 150 160 170 180 SSSVAMDKIT TKRVLESAGI PQVNYTVYIE GNDLEDCITE TLETLSFPIF VKPANMGSSV 190 200 210 220 230 240 GISKAESIEG LREAIALALK YDSRILIEQG VVAREIEVGL LGNTKVASTL PGEVIKDVAF 250 260 270 280 290 300 YDYQAKYIDN KISMAIPATI DEGITSQMRY FAEQAFKAIG ACGLSRCDFF LAEDGNLYLN 310 320 330 340 ELNTMPGFTQ WSMYPLLWDN MGLSYSDLIE ELVSLAEEMF QKRESHLI

References

[1]

"Evidence for niche adaptation in the genome of the bovine pathogen Streptococcus uberis." Ward P.N., Holden M.T.G., Leigh J.A., Lennard N., Bignell A., Barron A., Clark L., Quail M.A., Woodward J., Barrell B.G., Egan S.A., Field T.R., Maskell D., Kehoe M., Dowson C.G., Chanter N., Whatmore A.M., Bentley S.D., Parkhill J. BMC Genomics 10:54-54(2009) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC BAA-854 / 0140J.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AM946015 Genomic DNA. Translation: CAR42743.1.
RefSeq	YP_002562562.1. NC_012004.1.
3D structure databases
ProteinModelPortal	B9DUS0.
ModBase	Search...
Protein-protein interaction databases
STRING	218495.SUB1257.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	CAR42743; CAR42743; SUB1257.
GeneID	7391862.
KEGG	sub:SUB1257.
PATRIC	19808222. VBIStrUbe20775_1227.
Organism-specific databases
CMR	Search...
Phylogenomic databases
eggNOG	COG1181.
HOGENOM	HOG000011593.
KO	K01921.
OMA	LLHGPFG.
Enzyme and pathway databases
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. 1 hit. [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_STRU0

Accession

Primary (citable) accession number: B9DUS0

Entry history

Integrated into UniProtKB/Swiss-Prot:	July 28, 2009
Last sequence update:	March 24, 2009
Last modified:	May 1, 2013
This is version 36 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program