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Protein

D-alanine--D-alanine ligase

Gene

ddl

Organism
Geobacillus kaustophilus (strain HTA426)
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 bindingi300Magnesium or manganese 1UniRule annotation1
Metal bindingi313Magnesium or manganese 1UniRule annotation1
Metal bindingi313Magnesium or manganese 2UniRule annotation1
Metal bindingi315Magnesium or manganese 2UniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi174 – 229ATPUniRule 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:GK0223
OrganismiGeobacillus kaustophilus (strain HTA426)
Taxonomic identifieri235909 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliBacillalesBacillaceaeGeobacillusGeobacillus thermoleovorans group
Proteomesi

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_10000304491 – 367D-alanine--D-alanine ligaseAdd BLAST367

Proteomic databases

PRIDEiQ5L3H2

Interactioni

Protein-protein interaction databases

STRINGi235909.GK0223

Structurei

3D structure databases

ProteinModelPortaliQ5L3H2
SMRiQ5L3H2
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini141 – 346ATP-graspUniRule annotationAdd BLAST206

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiENOG4105CPF Bacteria
COG1181 LUCA
HOGENOMiHOG000011593
KOiK01921
OMAiRCDFFVI
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.

Q5L3H2-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKTKVGVLYG GKSPEHQVSL STAMAVMNAI DPHKFDVIPI YITPEGQWIK
60 70 80 90 100
GEQLTGPIEE IKQLQFTSAA TALIPVSLNQ VPAADSAAGG NEETIDVIFP
110 120 130 140 150
LLHGPNGEDG TVQGLLEILN IPYVGNGVLA SAVGMDKVMM KNLFAQAGLR
160 170 180 190 200
QAKYIAVTKY DWQKRGETVY DRIERELGYP CFVKPANAGS SVGISKCKQR
210 220 230 240 250
GDLKAAFIEA FQYDRKIIIE EAIVGREIEI GVIGNDEPIC SVVGEIVPKK
260 270 280 290 300
EFYDYEAKYE DGQTELIIPA DVTKEQYETI KQMAITAFQV LDLSGLARVD
310 320 330 340 350
FFLAEDGAVY INEVNTMPGF TPYSMFPLLW QHSGVPYPEL IERLIALALE
360
RHQEKQTITY TFKKEKR
Length:367
Mass (Da):40,687
Last modified:February 1, 2005 - v1
Checksum:iFB581628BA66B0F6
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000043 Genomic DNA Translation: BAD74508.1
RefSeqiWP_011229733.1, NC_006510.1

Genome annotation databases

EnsemblBacteriaiBAD74508; BAD74508; GK0223
KEGGigka:GK0223
PATRICifig|235909.7.peg.283

Entry informationi

Entry nameiDDL_GEOKA
AccessioniPrimary (citable) accession number: Q5L3H2
Entry historyiIntegrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: February 1, 2005
Last modified: March 28, 2018
This is version 87 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

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