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Protein

D-alanine--D-alanine ligase

Gene

ddl

Organism
Paracoccus denitrificans (strain Pd 1222)
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 bindingi256Magnesium or manganese 1UniRule annotation1
Metal bindingi272Magnesium or manganese 1UniRule annotation1
Metal bindingi272Magnesium or manganese 2UniRule annotation1
Metal bindingi274Magnesium 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:Pden_4490Imported
OrganismiParacoccus denitrificans (strain Pd 1222)Imported
Taxonomic identifieri318586 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhodobacteralesRhodobacteraceaeParacoccus
Proteomesi
  • UP000000361 Componenti: Chromosome 2

Subcellular locationi

  • Cytoplasm UniRule annotationSAAS annotation

GO - Cellular componenti

Keywords - Cellular componenti

CytoplasmUniRule annotationSAAS annotation

Interactioni

Protein-protein interaction databases

STRINGi318586.Pden_4490.

Structurei

3D structure databases

ProteinModelPortaliA1BAL0.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini112 – 305ATP-graspInterPro annotationAdd BLAST194

Sequence similaritiesi

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

A1BAL0-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MRQKLAGRSS RTAPKVVVLM GGPSAEREVS LSSGRECAVA LRQAGYEVVE
60 70 80 90 100
LDAGRDLPAR LAEHAPDVVF NALHGRWGED GCVQGLLEWL GWRYTHSGVL
110 120 130 140 150
ASALAMDKSR AKEILRLAGL PVLDSLIADA DEVRARHVMA PPYVVKPNDE
160 170 180 190 200
GSSVGVYIVH EAANGPPQLS DKMPARVMVE TYAPGRELTV AVLGDRALGV
210 220 230 240 250
TEIVTEGWYD YDAKYTPGGS RHVIPADIPE EIAAACRDHA VQAHRALGCR
260 270 280 290 300
GLTRSDFRWD ESRGLDGLII LEVNTQPGMT PTSLAPEQAA HSGMDFPALC
310
RWIVEEALCR A
Length:311
Mass (Da):33,619
Last modified:January 23, 2007 - v1
Checksum:iDA554E96D8EBD7D2
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000490 Genomic DNA. Translation: ABL72554.1.
RefSeqiWP_011750715.1. NC_008687.1.

Genome annotation databases

EnsemblBacteriaiABL72554; ABL72554; Pden_4490.
KEGGipde:Pden_4490.

Similar proteinsi

Entry informationi

Entry nameiA1BAL0_PARDP
AccessioniPrimary (citable) accession number: A1BAL0
Entry historyiIntegrated into UniProtKB/TrEMBL: January 23, 2007
Last sequence update: January 23, 2007
Last modified: November 22, 2017
This is version 93 of the entry and version 1 of the sequence. See complete history.
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteomeImported