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Protein

D-alanine--D-alanine ligase

Gene

ddl

Organism
Atopobium parvulum (strain ATCC 33793 / DSM 20469 / JCM 10300 / VPI 0546) (Streptococcus parvulus) (Peptostreptococcus parvulus)
Status
Unreviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

Cell wall formation.UniRule annotationSAAS annotation

Catalytic activityi

ATP + 2 D-alanine = ADP + phosphate + D-alanyl-D-alanine.UniRule annotationSAAS annotation

Cofactori

Protein has several cofactor binding sites:
  • Mg2+UniRule annotation, Mn2+UniRule annotationNote: Binds 2 magnesium or manganese ions per subunit.UniRule annotation
  • Mn2+SAAS annotation

Pathwayi: peptidoglycan biosynthesis

This protein is involved in the pathway peptidoglycan biosynthesis, which is part of Cell wall biogenesis.UniRule annotationSAAS 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 bindingi266Magnesium or manganese 1UniRule annotation1
Metal bindingi279Magnesium or manganese 1UniRule annotation1
Metal bindingi279Magnesium or manganese 2UniRule annotation1
Metal bindingi281Magnesium or manganese 2UniRule annotation1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionLigaseUniRule annotationSAAS annotationImported
Biological processCell shape, Cell wall biogenesis/degradationUniRule annotationSAAS annotation, Peptidoglycan synthesisUniRule annotationSAAS annotation
LigandATP-bindingPROSITE-ProRule annotationSAAS annotation, MagnesiumUniRule annotationSAAS annotation, ManganeseUniRule annotationSAAS annotation, Metal-bindingUniRule annotationSAAS annotation, Nucleotide-binding

Enzyme and pathway databases

UniPathwayiUPA00219.

Names & Taxonomyi

Protein namesi
Recommended name:
D-alanine--D-alanine ligaseUniRule annotationSAAS annotation (EC:6.3.2.4UniRule annotationSAAS annotation)
Alternative name(s):
D-Ala-D-Ala ligaseUniRule annotation
D-alanylalanine synthetaseUniRule annotation
Gene namesi
Name:ddlUniRule annotation
Ordered Locus Names:Apar_1360Imported
OrganismiAtopobium parvulum (strain ATCC 33793 / DSM 20469 / JCM 10300 / VPI 0546) (Streptococcus parvulus) (Peptostreptococcus parvulus)Imported
Taxonomic identifieri521095 [NCBI]
Taxonomic lineageiBacteriaActinobacteriaCoriobacteriiaCoriobacterialesAtopobiaceaeAtopobium
Proteomesi
  • UP000000960 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotationSAAS annotation

GO - Cellular componenti

Keywords - Cellular componenti

CytoplasmUniRule annotationSAAS annotation

Interactioni

Protein-protein interaction databases

STRINGi521095.Apar_1360.

Structurei

3D structure databases

ProteinModelPortaliC8W8J3.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini109 – 312ATP-graspInterPro annotationAdd BLAST204

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiENOG4105CPF. Bacteria.
COG1181. LUCA.
HOGENOMiHOG000011592.
KOiK01921.
OMAiYDTKYIN.
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. 1 hit.
PIRSFiPIRSF039102. Ddl/VanB. 2 hits.
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.

C8W8J3-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTREELKKLH VAVVSGGWSD EHEIAMESGK QCAAALKEAG FINVDLLDVA
60 70 80 90 100
EKDFVVALAQ GDYDVVYVAM HGRFGEDGCI QGLLEILHIP YTFSGVLASA
110 120 130 140 150
MGTEKELSKL MYRQAGIPTP RGIDVPSGTV FTDEQVDKLI EDLGFPMFVK
160 170 180 190 200
PSGNGSSYGV TRVTSREELP AALKLAGEQG ERILIEECVV GTEITVPVIG
210 220 230 240 250
NDNPTALPIV EIVTGDEFYS IKTKYEPASL HHVIPARLEP AVYARAQELA
260 270 280 290 300
IKAHNALGCR GVSRSDFIVT EDGEPVVLET NTIPGMTARS LLPDSARTGG
310
IDFPELCTRF IEFALEDRQ
Length:319
Mass (Da):34,579
Last modified:November 3, 2009 - v1
Checksum:iCE4446E8B45FF41D
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001721 Genomic DNA. Translation: ACV51784.1.
RefSeqiWP_012809440.1. NC_013203.1.

Genome annotation databases

EnsemblBacteriaiACV51784; ACV51784; Apar_1360.
KEGGiapv:Apar_1360.

Similar proteinsi

Entry informationi

Entry nameiC8W8J3_ATOPD
AccessioniPrimary (citable) accession number: C8W8J3
Entry historyiIntegrated into UniProtKB/TrEMBL: November 3, 2009
Last sequence update: November 3, 2009
Last modified: September 27, 2017
This is version 68 of the entry and version 1 of the sequence. See complete history.
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteomeImported