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Protein

D-alanine--D-alanine ligase

Gene

ddl

Organism
Clostridium thermocellum (strain ATCC 27405 / DSM 1237 / NBRC 103400 / NCIMB 10682 / NRRL B-4536 / VPI 7372) (Ruminiclostridium thermocellum)
Status
Reviewed-Annotation score: -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 bindingi314Magnesium or manganese 1UniRule annotation1
Metal bindingi328Magnesium or manganese 1UniRule annotation1
Metal bindingi328Magnesium or manganese 2UniRule annotation1
Metal bindingi330Magnesium or manganese 2UniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi188 – 243ATPUniRule 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

BioCyciCTHE203119:G1G86-2020-MONOMER
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:Cthe_1938
OrganismiClostridium thermocellum (strain ATCC 27405 / DSM 1237 / NBRC 103400 / NCIMB 10682 / NRRL B-4536 / VPI 7372) (Ruminiclostridium thermocellum)
Taxonomic identifieri203119 [NCBI]
Taxonomic lineageiBacteriaFirmicutesClostridiaClostridialesRuminococcaceaeRuminiclostridium
Proteomesi
  • UP000002145 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003410831 – 376D-alanine--D-alanine ligaseAdd BLAST376

Interactioni

Protein-protein interaction databases

STRINGi203119.Cthe_1938

Structurei

3D structure databases

ProteinModelPortaliA3DGS7
SMRiA3DGS7
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini155 – 361ATP-graspUniRule annotationAdd BLAST207

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiENOG4105CPF Bacteria
COG1181 LUCA
HOGENOMiHOG000011593
KOiK01921
OMAiYETKYTE
OrthoDBiPOG091H06GK

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.

A3DGS7-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MGDKKRVLVI FGGQSSEHEV SRISATSILK NINLDKFDVS MIGITKDGKW
60 70 80 90 100
LYYDGPIDKI PSGEWEEIAL KDGTRSIADR VSLFDNIISC KNNACGLEKA
110 120 130 140 150
SENEKSKKID VVFPVLHGCN GEDGTIQGLF ELAGIPYVGC GVLASAVGMD
160 170 180 190 200
KIYAKIIFEK AGIPQADYLY FTRKEIYGDV EGVVDKIEEK FSYPVFVKPS
210 220 230 240 250
NAGSSVGVSK AHDKNELKEA LIYAARYDRK VLIEEFINGR EVECAVLGND
260 270 280 290 300
DPVASTVGEI IPGNEFYDYK AKYIENTSKI KIPADLPEET VEQIRNYAVK
310 320 330 340 350
AFKALDCSGL ARVDFFVHKE TGKVYINEIN TMPGFTSISM YPMLWEESGI
360 370
SYPELIEKLI DLAVQRYNDN LKEYDE
Length:376
Mass (Da):41,923
Last modified:March 20, 2007 - v1
Checksum:i5E7BF27ABC8B31A6
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000568 Genomic DNA Translation: ABN53156.1
RefSeqiWP_020457664.1, NC_009012.1

Genome annotation databases

EnsemblBacteriaiABN53156; ABN53156; Cthe_1938
GeneIDi35803211
KEGGicth:Cthe_1938

Similar proteinsi

Entry informationi

Entry nameiDDL_CLOTH
AccessioniPrimary (citable) accession number: A3DGS7
Entry historyiIntegrated into UniProtKB/Swiss-Prot: June 10, 2008
Last sequence update: March 20, 2007
Last modified: April 25, 2018
This is version 78 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
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Main funding by: National Institutes of Health