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Protein

D-alanine--D-alanine ligase

Gene

ddl

Organism
Janthinobacterium sp. (strain Marseille) (Minibacterium massiliensis)
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 bindingi261Magnesium or manganese 1UniRule annotation1
Metal bindingi275Magnesium or manganese 1UniRule annotation1
Metal bindingi275Magnesium or manganese 2UniRule annotation1
Metal bindingi277Magnesium or manganese 2UniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi134 – 189ATPUniRule 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:mma_3013
OrganismiJanthinobacterium sp. (strain Marseille) (Minibacterium massiliensis)
Taxonomic identifieri375286 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaBetaproteobacteriaBurkholderialesOxalobacteraceaeJanthinobacterium
Proteomesi
  • UP000006388 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_10000573231 – 320D-alanine--D-alanine ligaseAdd BLAST320

Interactioni

Protein-protein interaction databases

STRINGi375286.mma_3013.

Structurei

3D structure databases

ProteinModelPortaliA6T2F6.
SMRiA6T2F6.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini104 – 308ATP-graspUniRule annotationAdd BLAST205

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.

A6T2F6-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKKEFGKVGV LFGGRSAERE VSLMSGKGVL AALLSKGIDA HPFDPAERSL
60 70 80 90 100
AELAAEKFDR VFIALHGRFG EDGSLQGALE QLGIPYTGPG VMASAIAMDK
110 120 130 140 150
VITKRVCLSH GVPTPKFTAL EVEATTAEQL QAIAAEFGMP LMLKAPHEGS
160 170 180 190 200
TIGIAKVETA EGMQAGFDLC AKYDDVVLVE QFVKGRELTV PVLGSGRNAR
210 220 230 240 250
ALPIVEIIAP QGNYDYEHKY FSDDTQYLCP APFDAAFTKR VQALAVSAFN
260 270 280 290 300
AVGCTGWARV DFLVRESDNE PFLLEINTSP GMTGHSLVPM SAKVAGTAYE
310 320
DLCVEILRMA KLGLKPVQHK
Length:320
Mass (Da):34,332
Last modified:August 21, 2007 - v1
Checksum:iF19AB0811DDE7B8A
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000269 Genomic DNA. Translation: ABR89041.1.

Genome annotation databases

EnsemblBacteriaiABR89041; ABR89041; mma_3013.
KEGGimms:mma_3013.

Similar proteinsi

Entry informationi

Entry nameiDDL_JANMA
AccessioniPrimary (citable) accession number: A6T2F6
Entry historyiIntegrated into UniProtKB/Swiss-Prot: February 5, 2008
Last sequence update: August 21, 2007
Last modified: November 22, 2017
This is version 73 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