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Protein

D-alanine--D-alanine ligase

Gene

ddl

Organism
Bacillus velezensis (strain DSM 23117 / BGSC 10A6 / FZB42) (Bacillus amyloliquefaciens subsp. plantarum)
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 bindingi292Magnesium or manganese 1UniRule annotation1
Metal bindingi305Magnesium or manganese 1UniRule annotation1
Metal bindingi305Magnesium or manganese 2UniRule annotation1
Metal bindingi307Magnesium or manganese 2UniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi166 – 221ATPUniRule 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

UniPathwayiUPA00219

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:RBAM_004900
OrganismiBacillus velezensis (strain DSM 23117 / BGSC 10A6 / FZB42) (Bacillus amyloliquefaciens subsp. plantarum)
Taxonomic identifieri326423 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliBacillalesBacillaceaeBacillusBacillus amyloliquefaciens group
Proteomesi
  • UP000001120 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003410581 – 354D-alanine--D-alanine ligaseAdd BLAST354

Structurei

3D structure databases

ProteinModelPortaliA7Z1L3
SMRiA7Z1L3
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini133 – 338ATP-graspUniRule annotationAdd BLAST206

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiENOG4105CPF Bacteria
COG1181 LUCA
HOGENOMiHOG000011593
KOiK01921
OMAiYETKYTE

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.

A7Z1L3-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MYGGKSAEHN VSLQTALAVT KALNTEKFDI HPIYITEKGE WQRGPLLTEP
60 70 80 90 100
VSNVKMLQLE QNGESFALSA LNREMFPEAS PDEKAPIDVV FPLLHGPNGE
110 120 130 140 150
DGTIQGLLEL LNVPYVGNGV LASSAGMDKV IMKHLFAQAG LPQAKYAAFL
160 170 180 190 200
KKDWKQTPDS CLQQVEKELG YPCFVKPANL GSSVGISKCR NREELEKAFE
210 220 230 240 250
LAFEYDRKIV VEEGIAGREI EIGVLGNDEP KCSAVGEIAP KTDFYDYKAK
260 270 280 290 300
YEDGDTDLMI PAQVTDEQYA EISEMAIKAF KAIDGSGLVR ADFFLTNDGQ
310 320 330 340 350
VLINEVNTMP GFTPFSMFPL LWKEAGVDYS DLIEQLVELA KERHAEKQLI

KHTF
Length:354
Mass (Da):39,216
Last modified:October 23, 2007 - v1
Checksum:iE55EAFAD7042E84C
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000560 Genomic DNA Translation: ABS72889.1

Genome annotation databases

EnsemblBacteriaiABS72889; ABS72889; RBAM_004900
KEGGibay:RBAM_004900

Similar proteinsi

Entry informationi

Entry nameiDDL_BACVZ
AccessioniPrimary (citable) accession number: A7Z1L3
Entry historyiIntegrated into UniProtKB/Swiss-Prot: June 10, 2008
Last sequence update: October 23, 2007
Last modified: May 23, 2018
This is version 78 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, Reference proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. SIMILARITY comments
    Index of protein domains and families

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