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Protein

D-alanine--D-alanine ligase

Gene

ddl

Organism
Acidovorax ebreus (strain TPSY) (Diaphorobacter sp. (strain TPSY))
Status
Reviewed-Annotation score: -Protein inferred from homologyi

Functioni

Cell wall formation.UniRule annotation

Catalytic activityi

ATP + 2 D-alanine = ADP + phosphate + D-alanyl-D-alanine.UniRule annotation

Cofactori

Mg2+By similarity, Mn2+By similarityNote: Binds 2 magnesium or manganese ions per subunit.By similarity

Pathwayi: peptidoglycan biosynthesis

This protein is involved in the pathway peptidoglycan biosynthesis, which is part of Cell wall biogenesis.UniRule annotation
View all proteins of this organism that are known to be involved in the pathway peptidoglycan biosynthesis and in Cell wall biogenesis.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi265Magnesium or manganese 1UniRule annotation1
Metal bindingi279Magnesium or manganese 1UniRule annotation1
Metal bindingi279Magnesium or manganese 2UniRule annotation1
Metal bindingi281Magnesium or manganese 2UniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi138 – 193ATPUniRule annotationAdd BLAST56

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionLigase
Biological processCell shape, Cell wall biogenesis/degradation, Peptidoglycan synthesis
LigandATP-binding, Magnesium, Manganese, Metal-binding, Nucleotide-binding

Enzyme and pathway databases

UniPathwayi
UPA00219

Names & Taxonomyi

Protein namesi
Recommended name:
D-alanine--D-alanine ligaseUniRule annotation (EC:6.3.2.4UniRule annotation)
Alternative name(s):
D-Ala-D-Ala ligaseUniRule annotation
D-alanylalanine synthetaseUniRule annotation
Gene namesi
Name:ddlUniRule annotation
Ordered Locus Names:Dtpsy_2978
OrganismiAcidovorax ebreus (strain TPSY) (Diaphorobacter sp. (strain TPSY))
Taxonomic identifieri535289 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaBetaproteobacteriaBurkholderialesComamonadaceaeAcidovorax
Proteomesi
  • UP000000450 Componenti: Chromosome

Subcellular locationi

GO - Cellular componenti

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_10001897361 – 332D-alanine--D-alanine ligaseAdd BLAST332

Proteomic databases

PRIDEiB9MFR0

Interactioni

Protein-protein interaction databases

STRINGi535289.Dtpsy_2978

Structurei

3D structure databases

ProteinModelPortaliB9MFR0
SMRiB9MFR0
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini112 – 312ATP-graspUniRule annotationAdd BLAST201

Sequence similaritiesi

Belongs to the D-alanine--D-alanine ligase family.UniRule annotation

Phylogenomic databases

eggNOGiENOG4105CPF Bacteria
COG1181 LUCA
HOGENOMiHOG000011592
KOiK01921
OMAiYETKYTE
OrthoDBiPOG091H00GT

Family and domain databases

Gene3Di3.30.1490.20, 1 hit
HAMAPiMF_00047 Dala_Dala_lig, 1 hit
InterProiView protein in InterPro
IPR011761 ATP-grasp
IPR013815 ATP_grasp_subdomain_1
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_sf
PfamiView protein in Pfam
PF07478 Dala_Dala_lig_C, 1 hit
PF01820 Dala_Dala_lig_N, 1 hit
PIRSFiPIRSF039102 Ddl/VanB, 1 hit
SUPFAMiSSF52440 SSF52440, 1 hit
TIGRFAMsiTIGR01205 D_ala_D_alaTIGR, 1 hit
PROSITEiView protein in PROSITE
PS50975 ATP_GRASP, 1 hit
PS00843 DALA_DALA_LIGASE_1, 1 hit
PS00844 DALA_DALA_LIGASE_2, 1 hit

Sequencei

Sequence statusi: Complete.

B9MFR0-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MSQNDPKIDV KALGKVAVLM GGTSAEREVS LMSGGGVLQA LRSRGVDAHA
60 70 80 90 100
FDPAHSDLSE LKAHGYSRCF IALHGRHGED GTVQGALELL GIPYTGPGVM
110 120 130 140 150
ASSIAMDKIM TKRIWRADGL PTPDWRLVSS SAETAQAFQE LGAPMIVKPS
160 170 180 190 200
REGSTIGLTK VTSLGQCEQA YRLAAQHDPE VLCEQFIDGD ETTCPILGQG
210 220 230 240 250
AEARALPVIR IEAPQGNYDY QNKYFTDVTQ YHCPSGLPEA EEREIQRIVV
260 270 280 290 300
QAYRTLGCRG WARADIMIRA SDRKPFLLEI NTSPGMTGHS LVPMSANASG
310 320 330
ISYPDLCLRI LASASLDALQ GRAGAAGGRE PV
Length:332
Mass (Da):35,590
Last modified:March 24, 2009 - v1
Checksum:i08878B18834E33F0
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001392 Genomic DNA Translation: ACM34411.1
RefSeqiWP_015914261.1, NC_011992.1

Genome annotation databases

EnsemblBacteriaiACM34411; ACM34411; Dtpsy_2978
KEGGidia:Dtpsy_2978

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001392 Genomic DNA Translation: ACM34411.1
RefSeqiWP_015914261.1, NC_011992.1

3D structure databases

ProteinModelPortaliB9MFR0
SMRiB9MFR0
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi535289.Dtpsy_2978

Proteomic databases

PRIDEiB9MFR0

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiACM34411; ACM34411; Dtpsy_2978
KEGGidia:Dtpsy_2978

Phylogenomic databases

eggNOGiENOG4105CPF Bacteria
COG1181 LUCA
HOGENOMiHOG000011592
KOiK01921
OMAiYETKYTE
OrthoDBiPOG091H00GT

Enzyme and pathway databases

UniPathwayi
UPA00219

Family and domain databases

Gene3Di3.30.1490.20, 1 hit
HAMAPiMF_00047 Dala_Dala_lig, 1 hit
InterProiView protein in InterPro
IPR011761 ATP-grasp
IPR013815 ATP_grasp_subdomain_1
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_sf
PfamiView protein in Pfam
PF07478 Dala_Dala_lig_C, 1 hit
PF01820 Dala_Dala_lig_N, 1 hit
PIRSFiPIRSF039102 Ddl/VanB, 1 hit
SUPFAMiSSF52440 SSF52440, 1 hit
TIGRFAMsiTIGR01205 D_ala_D_alaTIGR, 1 hit
PROSITEiView protein in PROSITE
PS50975 ATP_GRASP, 1 hit
PS00843 DALA_DALA_LIGASE_1, 1 hit
PS00844 DALA_DALA_LIGASE_2, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiDDL_ACIET
AccessioniPrimary (citable) accession number: B9MFR0
Entry historyiIntegrated into UniProtKB/Swiss-Prot: July 28, 2009
Last sequence update: March 24, 2009
Last modified: October 10, 2018
This is version 62 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. PATHWAY comments
    Index of metabolic and biosynthesis pathways
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Main funding by: National Institutes of Health

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