O51218 (DDL_BORBU) 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
Synonyms:	ddlA
Ordered Locus Names:	BB_0200

Organism

Borrelia burgdorferi (Lyme disease spirochete)

Taxonomic identifier

139 [NCBI]

Taxonomic lineage

Bacteria › Spirochaetes › Spirochaetales › Spirochaetaceae › Borrelia › Borrelia burgdorferi group

Protein attributes

Sequence length	356 AA.
Sequence status	Complete.
Protein existence	Inferred from homology

General annotation (Comments)

Function	Cell wall formation By similarity. HAMAP MF_00047
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 HAMAP MF_00047.
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 Reference proteome
Gene Ontology (GO)
Biological process	cellular cell wall organization Inferred from electronic annotation. Source: UniProtKB-KW peptidoglycan biosynthetic process Inferred from electronic annotation. Source: UniProtKB-KW 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: EC metal 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 – 356	356	D-alanine--D-alanine ligase HAMAP MF_00047		PRO_0000177789
Regions
	Domain	129 – 339	211	ATP-grasp
	Nucleotide binding	162 – 217	56	ATP By similarity
Sites
	Metal binding	292	1	Magnesium or manganese 1 By similarity
	Metal binding	306	1	Magnesium or manganese 1 By similarity
	Metal binding	306	1	Magnesium or manganese 2 By similarity
	Metal binding	308	1	Magnesium or manganese 2 By similarity

Sequences

	Sequence		Length	Mass (Da)
	O51218 [UniParc]. Last modified June 1, 1998. Version 1. Checksum: F6694E0E09327DE8	FASTA	356	40,223
	10 20 30 40 50 60 MLIFGGVSFE HEISCKSAYS IYLALLDLNK YNIYPVYIDK CTGVWYLLDS VSDPPKPINT 70 80 90 100 110 120 DVLPIVSLLP GFGIFSNNKN LEIDVVFPVV HGRTGEDGAI QGVLKVMDIP CVGAGIIGSA 130 140 150 160 170 180 ISSNKYFCKL LLKSFDIPLV PFIGFRQHDY FLDKEEIKRN VKEVLGYPVI VKPAVLGSSI 190 200 210 220 230 240 GINVAYSENQ IESFIKEALK YDLTIVIEKF IEAREIECSI IGNEKMKIFS PGEVVVQDFI 250 260 270 280 290 300 FYDYDAKYSV IPGNSIIFNI PAHLETNQLL SIKEYAFLTY KNLELRGMAR VDFFVEKKSG 310 320 330 340 350 TIYLNEINTI PGFTDISMFA KMCSNDGLQF KDLVDNLIDY AFQSYINRKK RIDFEN

References

[1]

"Genomic sequence of a Lyme disease spirochaete, Borrelia burgdorferi." Fraser C.M., Casjens S., Huang W.M., Sutton G.G., Clayton R.A., Lathigra R., White O., Ketchum K.A., Dodson R.J., Hickey E.K., Gwinn M.L., Dougherty B.A., Tomb J.-F., Fleischmann R.D., Richardson D.L., Peterson J.D., Kerlavage A.R., Quackenbush J. , Salzberg S.L., Hanson M., van Vugt R., Palmer N., Adams M.D., Gocayne J.D., Weidman J.F., Utterback T.R., Watthey L., McDonald L.A., Artiach P., Bowman C., Garland S.A., Fujii C., Cotton M.D., Horst K., Roberts K.M., Hatch B., Smith H.O., Venter J.C. Nature 390:580-586(1997) [PubMed: 9403685] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 35210 / B31 / CIP 102532 / DSM 4680.

+

Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AE000783 Genomic DNA. Translation: AAC66589.1.
PIR	H70124.
RefSeq	NP_212334.1. NC_001318.1.
3D structure databases
ProteinModelPortal	O51218.
ModBase	Search...
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	EBBORT00000008598; EBBORP00000007928; EBBORG00000008597.
GeneID	1195035.
GenomeReviews	Gene locus BB_0200 in contig AE000783_GR.
KEGG	bbu:BB0200.
NMPDR	fig|224326.1.peg.584.
PATRIC	20557002. VBIBorBur75917_0596.
TIGR	BB_0200.
Phylogenomic databases
GeneTree	EBGT00050000007083.
HOGENOM	HBG427092.
OMA	APWPVDY.
PhylomeDB	O51218.
ProtClustDB	PRK14570.
Enzyme and pathway databases
BioCyc	BBUR224326:BB_0200-MONOMER.
Family and domain databases
HAMAP	MF_00047. Dala_Dala_lig. [Tree]
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. IPR013817. Pre-ATP_grasp. IPR016185. PreATP-grasp-like. [Graphical view]
Gene3D	G3DSA:3.30.1490.20. ATP_grasp_subdomain_1. 1 hit. G3DSA:3.30.470.20. ATP_grasp_subdomain_2. 1 hit. G3DSA:3.40.50.20. Pre-ATP_grasp. 1 hit.
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_BORBU

Accession

Primary (citable) accession number: O51218

Entry history

Integrated into UniProtKB/Swiss-Prot:	December 15, 1998
Last sequence update:	June 1, 1998
Last modified:	January 25, 2012
This is version 86 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program