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Protein

D-alanine--D-alanine ligase

Gene

ddl

Organism
Hamiltonella defensa subsp. Acyrthosiphon pisum (strain 5AT)
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 bindingi271Magnesium or manganese 1UniRule annotation1
Metal bindingi284Magnesium or manganese 1UniRule annotation1
Metal bindingi284Magnesium or manganese 2UniRule annotation1
Metal bindingi286Magnesium or manganese 2UniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi148 – 203ATPUniRule 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:HDEF_1781
OrganismiHamiltonella defensa subsp. Acyrthosiphon pisum (strain 5AT)
Taxonomic identifieri572265 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeaphid secondary symbiontsCandidatus Hamiltonella
Proteomesi
  • UP000002334 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_10002022001 – 320D-alanine--D-alanine ligaseAdd BLAST320

Interactioni

Protein-protein interaction databases

STRINGi572265.HDEF_1781.

Structurei

3D structure databases

ProteinModelPortaliC4K734.
SMRiC4K734.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini101 – 317ATP-graspUniRule annotationAdd BLAST217

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiENOG4105CPF. Bacteria.
COG1181. LUCA.
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. 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.

C4K734-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MPEKVAVLLG GTSSERQISL QSGHAVVAGL REAGIDARPI DTKNFLVTEL
60 70 80 90 100
KEKGFTKAFI ALHGRDGEDG HLQAVLEFLK IPYTGSGVMA SALAMDKHRS
110 120 130 140 150
KMIFQGAGLP VSPYVALNRE QIWPNVTQNT SNDLLLNNRI SNKLIKNINQ
160 170 180 190 200
LGLPLIVKPS REGSSFGMTK VEHLDQLDDA LKKAWHYDEE ILVEKWHFGT
210 220 230 240 250
ELTVAILGDT VLPSIRIQVS DIFYDYQAKY VSDKTQYFCP SGLKQEQEKQ
260 270 280 290 300
LATLSMNAYR ALGCDGWGRV DVMLDDEGHF YLMEINTAPG MTDHSLFPMA
310 320
ARQAGFSFSE LVCKILSLAH
Length:320
Mass (Da):35,514
Last modified:July 7, 2009 - v1
Checksum:iDB889E36FA65CBF2
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001277 Genomic DNA. Translation: ACQ68377.1.
RefSeqiWP_015874141.1. NC_012751.1.

Genome annotation databases

EnsemblBacteriaiACQ68377; ACQ68377; HDEF_1781.
KEGGihde:HDEF_1781.

Similar proteinsi

Entry informationi

Entry nameiDDL_HAMD5
AccessioniPrimary (citable) accession number: C4K734
Entry historyiIntegrated into UniProtKB/Swiss-Prot: September 22, 2009
Last sequence update: July 7, 2009
Last modified: August 30, 2017
This is version 60 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