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Protein

D-alanine--D-alanine ligase

Gene

ddl

Organism
Petrotoga mobilis (strain DSM 10674 / SJ95)
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 bindingi245Magnesium or manganese 1UniRule annotation1
Metal bindingi257Magnesium or manganese 1UniRule annotation1
Metal bindingi257Magnesium or manganese 2UniRule annotation1
Metal bindingi259Magnesium or manganese 2UniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi124 – 173ATPUniRule annotationAdd BLAST50

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

BioCyciPMOB403833:G1GAG-1688-MONOMER
UniPathwayi
UPA00219

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:Pmob_1643
OrganismiPetrotoga mobilis (strain DSM 10674 / SJ95)
Taxonomic identifieri403833 [NCBI]
Taxonomic lineageiBacteriaThermotogaePetrotogalesPetrotogaceaePetrotoga
Proteomesi
  • UP000000789 Componenti: Chromosome

Subcellular locationi

GO - Cellular componenti

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003411491 – 298D-alanine--D-alanine ligaseAdd BLAST298

Interactioni

Protein-protein interaction databases

STRINGi403833.Pmob_1643

Structurei

3D structure databases

ProteinModelPortaliA9BI46
SMRiA9BI46
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini97 – 290ATP-graspUniRule annotationAdd BLAST194

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_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
PROSITEiView protein in PROSITE
PS50975 ATP_GRASP, 1 hit
PS00843 DALA_DALA_LIGASE_1, 1 hit

Sequencei

Sequence statusi: Complete.

A9BI46-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MYIPIITGGK SKEREISLTS AKNVFNSISN LGYKPVILDL IDDDFINKIQ
60 70 80 90 100
NYKFAFNVVH GDYGEDGRLP SLLEILGIDY TCSNPETCIA TYDKFIFYSL
110 120 130 140 150
FKNYIQMPQT TLTNKLILPP FEYPFIIKPR KSGSSKGVYI IHNENEYKFY
160 170 180 190 200
LEKDLKEFQE VLVQEYIKGR EITISYIQKN EEFILLPILE IIPKKEFYDY
210 220 230 240 250
EAKYTNGLTE LKPQLNSPEK IIQKINEIGN HVMQTLTFKD MFRIDAILKD
260 270 280 290
DEVYVLEINT VPGLTELSDL PTSALAAGIS FDELINIIIK NHVARVAG
Length:298
Mass (Da):34,268
Last modified:January 15, 2008 - v1
Checksum:iF7BC92A4B0E2C790
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000879 Genomic DNA Translation: ABX32337.1
RefSeqiWP_012209434.1, NC_010003.1

Genome annotation databases

EnsemblBacteriaiABX32337; ABX32337; Pmob_1643
KEGGipmo:Pmob_1643

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000879 Genomic DNA Translation: ABX32337.1
RefSeqiWP_012209434.1, NC_010003.1

3D structure databases

ProteinModelPortaliA9BI46
SMRiA9BI46
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi403833.Pmob_1643

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABX32337; ABX32337; Pmob_1643
KEGGipmo:Pmob_1643

Phylogenomic databases

eggNOGiENOG4105CPF Bacteria
COG1181 LUCA
HOGENOMiHOG000011592
KOiK01921
OMAiYETKYTE
OrthoDBiPOG091H00GT

Enzyme and pathway databases

UniPathwayi
UPA00219

BioCyciPMOB403833:G1GAG-1688-MONOMER

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
PROSITEiView protein in PROSITE
PS50975 ATP_GRASP, 1 hit
PS00843 DALA_DALA_LIGASE_1, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiDDL_PETMO
AccessioniPrimary (citable) accession number: A9BI46
Entry historyiIntegrated into UniProtKB/Swiss-Prot: June 10, 2008
Last sequence update: January 15, 2008
Last modified: October 10, 2018
This is version 74 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. SIMILARITY comments
    Index of protein domains and families
  2. PATHWAY comments
    Index of metabolic and biosynthesis pathways
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Main funding by: National Institutes of Health

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