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Protein

D-alanine--D-alanine ligase

Gene

ddl

Organism
Dechloromonas aromatica (strain RCB)
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 bindingi250Magnesium or manganese 1UniRule annotation1
Metal bindingi263Magnesium or manganese 1UniRule annotation1
Metal bindingi263Magnesium or manganese 2UniRule annotation1
Metal bindingi265Magnesium or manganese 2UniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi127 – 182ATPUniRule 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:Daro_3496
OrganismiDechloromonas aromatica (strain RCB)
Taxonomic identifieri159087 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaBetaproteobacteriaRhodocyclalesAzonexaceaeDechloromonas
Proteomesi
  • UP000000550 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_10000747731 – 301D-alanine--D-alanine ligaseAdd BLAST301

Interactioni

Protein-protein interaction databases

STRINGi159087.Daro_3496.

Structurei

3D structure databases

ProteinModelPortaliQ47AA6.
SMRiQ47AA6.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini101 – 296ATP-graspUniRule annotationAdd BLAST196

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.
PfamiView protein in Pfam
PF07478. Dala_Dala_lig_C. 1 hit.
PF01820. Dala_Dala_lig_N. 2 hits.
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.

Q47AA6-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSSFGKVAVL FGGTSAEREV SLNSGSRVLA ALQGQGIDAH AFDPAEQPLD
60 70 80 90 100
ALKGYDRAFI ALHGRHGEDG TIQGALEVMH IPYTGSGVLA SALAMDKFRT
110 120 130 140 150
KLMWRAAGLA IPEYALLTAD SDFADIEEEL GLPLFVKPAR EGSSIGVTKV
160 170 180 190 200
KERGALKAAY EEAARHDPLV IAEKGVMGGE YTVGIIGDEA MPIIKIEPAT
210 220 230 240 250
EWYDYEAKYN RDDTRYLCPC GLPEAKEMEI RKGALEAFRI LGGRGWGRVD
260 270 280 290 300
FLMDEDGKYY FLEVNTAPGM TDHSLVPMAA RVNGMDYPTL VRRVLELAAN

D
Length:301
Mass (Da):32,734
Last modified:September 13, 2005 - v1
Checksum:iCD836C0E09B8C579
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000089 Genomic DNA. Translation: AAZ48225.1.
RefSeqiWP_011289221.1. NC_007298.1.

Genome annotation databases

EnsemblBacteriaiAAZ48225; AAZ48225; Daro_3496.
KEGGidar:Daro_3496.

Similar proteinsi

Entry informationi

Entry nameiDDL_DECAR
AccessioniPrimary (citable) accession number: Q47AA6
Entry historyiIntegrated into UniProtKB/Swiss-Prot: May 20, 2008
Last sequence update: September 13, 2005
Last modified: August 30, 2017
This is version 90 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