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Protein

D-alanine--D-alanine ligase

Gene

ddl

Organism
Rhizobium meliloti (strain 1021) (Ensifer meliloti) (Sinorhizobium meliloti)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-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 bindingi252Magnesium or manganese 1UniRule annotation1
Metal bindingi269Magnesium or manganese 1UniRule annotation1
Metal bindingi269Magnesium or manganese 2UniRule annotation1
Metal bindingi271Magnesium or manganese 2UniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi128 – 183ATPUniRule 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
Synonyms:ddlB
Ordered Locus Names:R02171
ORF Names:SMc01871
OrganismiRhizobium meliloti (strain 1021) (Ensifer meliloti) (Sinorhizobium meliloti)
Taxonomic identifieri266834 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesRhizobiaceaeSinorhizobium/Ensifer groupSinorhizobium
Proteomesi
  • UP000001976 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001778641 – 308D-alanine--D-alanine ligaseAdd BLAST308

Interactioni

Protein-protein interaction databases

STRINGi266834.SMc01871.

Structurei

3D structure databases

ProteinModelPortaliQ92NM4.
SMRiQ92NM4.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini102 – 302ATP-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.

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.
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.

Q92NM4-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSSKHVAVLL GGFSSERPVS LSSGTACADA LEAEGYRVTR VDVGRDVAAV
60 70 80 90 100
LQELRPDVVF NALHGPFGED GTIQGILEYL EIPYTHSGVL ASALAMDKDQ
110 120 130 140 150
AKHVAKAAGI PVAEALVMDR RSFGNQHPMK PPYVVKPVRE GSSFGVVIVK
160 170 180 190 200
EDQSHPPQVI TSSEWRYGDR VMVERYIAGR EFTCGVMGDV ALGVTEIIPQ
210 220 230 240 250
GHAFYDYDSK YVKGGSKHVI PAQISPNIYQ KIQTLALKAH QAIGCRGVSR
260 270 280 290 300
SDFRFDDRGD GEGELIWLEI NTQPGMTPTS LVPEMAQHAG LQFGEFLRWM

VEDASCLR
Length:308
Mass (Da):33,615
Last modified:December 1, 2001 - v1
Checksum:i1DB80EA2DD591D3F
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AL591688 Genomic DNA. Translation: CAC46750.1.
RefSeqiNP_386277.1. NC_003047.1.
WP_010969744.1. NC_003047.1.

Genome annotation databases

EnsemblBacteriaiCAC46750; CAC46750; SMc01871.
GeneIDi1233837.
KEGGisme:SMc01871.
PATRICifig|266834.11.peg.3637.

Similar proteinsi

Entry informationi

Entry nameiDDL_RHIME
AccessioniPrimary (citable) accession number: Q92NM4
Entry historyiIntegrated into UniProtKB/Swiss-Prot: December 15, 2003
Last sequence update: December 1, 2001
Last modified: August 30, 2017
This is version 98 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