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Protein

D-alanine--D-alanine ligase

Gene

ddl

Organism
Desulfovibrio desulfuricans (strain ATCC 27774 / DSM 6949)
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 bindingi249Magnesium or manganese 1UniRule annotation1
Metal bindingi262Magnesium or manganese 1UniRule annotation1
Metal bindingi262Magnesium or manganese 2UniRule annotation1
Metal bindingi264Magnesium or manganese 2UniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi127 – 180ATPUniRule annotationAdd BLAST54

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:Ddes_0872
OrganismiDesulfovibrio desulfuricans (strain ATCC 27774 / DSM 6949)
Taxonomic identifieri525146 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaDeltaproteobacteriaDesulfovibrionalesDesulfovibrionaceaeDesulfovibrio
Proteomesi
  • UP000002598 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_10001897351 – 306D-alanine--D-alanine ligaseAdd BLAST306

Interactioni

Protein-protein interaction databases

STRINGi525146.Ddes_0872.

Structurei

3D structure databases

ProteinModelPortaliB8IZ52.
SMRiB8IZ52.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini100 – 295ATP-graspUniRule annotationAdd BLAST196

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.
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.
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.

B8IZ52-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKILLIAGGW SPERQVSLNG ARAMVPALEA RGHEVTFFDL LENFNGLLAA
60 70 80 90 100
AEQHDFALIN LHGAPGEDGL VQAMLDQVGC PYQGAGPAGS FLALNKCAAK
110 120 130 140 150
QIFRRAGLPT ADWDFVPAFP GKDWQPRLPY PLFVKSNTGG SSLRLGRARN
160 170 180 190 200
RAELDDIMGQ IFAAGEEVIM EPVLPGREVT CGILGEDPLP PILIEPVAGD
210 220 230 240 250
FFNYESKYEQ DGARELCPAP IGDELTARVQ ELTLAAHRAL GLRGYSRADF
260 270 280 290 300
ILGPDDSLTL LEVNTLPGMT ATSLVPREAR TIGLDFGQLL ERLMELGLAD

CKKKQM
Length:306
Mass (Da):33,138
Last modified:March 3, 2009 - v1
Checksum:iF60448E5D63DBCD3
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001358 Genomic DNA. Translation: ACL48779.1.
RefSeqiWP_012624504.1. NC_011883.1.

Genome annotation databases

EnsemblBacteriaiACL48779; ACL48779; Ddes_0872.
KEGGidds:Ddes_0872.

Similar proteinsi

Entry informationi

Entry nameiDDL_DESDA
AccessioniPrimary (citable) accession number: B8IZ52
Entry historyiIntegrated into UniProtKB/Swiss-Prot: July 28, 2009
Last sequence update: March 3, 2009
Last modified: August 30, 2017
This is version 56 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