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Protein

D-alanine--D-alanine ligase

Gene

ddl

Organism
Syntrophomonas wolfei subsp. wolfei (strain DSM 2245B / Goettingen)
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 bindingi258Magnesium or manganese 1UniRule annotation1
Metal bindingi271Magnesium or manganese 1UniRule annotation1
Metal bindingi271Magnesium or manganese 2UniRule annotation1
Metal bindingi273Magnesium or manganese 2UniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi132 – 187ATPUniRule 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:Swol_1155
OrganismiSyntrophomonas wolfei subsp. wolfei (strain DSM 2245B / Goettingen)
Taxonomic identifieri335541 [NCBI]
Taxonomic lineageiBacteriaFirmicutesClostridiaClostridialesSyntrophomonadaceaeSyntrophomonas
Proteomesi
  • UP000001968 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003411831 – 309D-alanine--D-alanine ligaseAdd BLAST309

Interactioni

Protein-protein interaction databases

STRINGi335541.Swol_1155.

Structurei

3D structure databases

ProteinModelPortaliQ0AXT9.
SMRiQ0AXT9.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini100 – 304ATP-graspUniRule annotationAdd BLAST205

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiENOG4105CPF. Bacteria.
COG1181. LUCA.
HOGENOMiHOG000011592.
KOiK01921.
OMAiMQGLLEC.
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.

Q0AXT9-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MNKVLVLMGG TSEEREVSLK SGKAVYEGLK DAGYEVEALD FTPETIHRIR
60 70 80 90 100
EYSPDVVFIT LHGKNGEDGT VQGYLELLGI PYTGSGVLAS AVCMNKVITK
110 120 130 140 150
KLLSYEGLPT ADFQVIKKRG FNRDLFNPDL LMEDFGLPLV VKPATQGSSV
160 170 180 190 200
GTSIVRKRKN IVPALELALS LDEEILVEKF IAGTELTVTV LGKDNLKTLP
210 220 230 240 250
VIEIVPKNEY YDYESKYMPG MSDHLIPARI SEEERERVEE ISCKAYDAVG
260 270 280 290 300
CRGYGRIDLI LDRGGNPYIL EINTLPGMTG TSLVPDAARA AGIKFPELLD

LFVKMALEK
Length:309
Mass (Da):34,037
Last modified:October 17, 2006 - v1
Checksum:i3D85DD313F98E83E
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000448 Genomic DNA. Translation: ABI68465.1.

Genome annotation databases

EnsemblBacteriaiABI68465; ABI68465; Swol_1155.
KEGGiswo:Swol_1155.

Entry informationi

Entry nameiDDL_SYNWW
AccessioniPrimary (citable) accession number: Q0AXT9
Entry historyiIntegrated into UniProtKB/Swiss-Prot: June 10, 2008
Last sequence update: October 17, 2006
Last modified: November 22, 2017
This is version 81 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