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Protein

D-alanine--D-alanine ligase

Gene

ddl

Organism
Magnetococcus marinus (strain ATCC BAA-1437 / JCM 17883 / MC-1)
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 bindingi259Magnesium or manganese 1UniRule annotation1
Metal bindingi272Magnesium or manganese 1UniRule annotation1
Metal bindingi272Magnesium or manganese 2UniRule annotation1
Metal bindingi274Magnesium or manganese 2UniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi135 – 190ATPUniRule 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

BioCyciMMAR156889:G1G7E-772-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:Mmc1_0750
OrganismiMagnetococcus marinus (strain ATCC BAA-1437 / JCM 17883 / MC-1)
Taxonomic identifieri156889 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaMagnetococcalesMagnetococcaceaeMagnetococcus
Proteomesi
  • UP000002586 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_10000304651 – 310D-alanine--D-alanine ligaseAdd BLAST310

Interactioni

Protein-protein interaction databases

STRINGi156889.Mmc1_0750

Structurei

3D structure databases

ProteinModelPortaliA0L5M8
SMRiA0L5M8
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini104 – 305ATP-graspUniRule annotationAdd BLAST202

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
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.

A0L5M8-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MDWKQKKIGV LYGGLSEERE VSLRSGQALF VALQSLGYQV VAIDVDRHIT
60 70 80 90 100
KVLEREGIEV AVLALHGPMG EDGTIQGLLE FMGIPYTGPN VAASAICMDK
110 120 130 140 150
GLSKRLFHSE GLPTPAWIEL AGDHEEADEL VDHFLGDFHG AAFVKPLDSG
160 170 180 190 200
SSVGISRAVG KDELIRGVAK ALSVSHRCMV ERAIEGRELT LSILDGEAFP
210 220 230 240 250
LIEIVPIDGF YDYDHKYTAG RTNYLVPAPN LDDKSLEAVV KIGLAAYHIT
260 270 280 290 300
GCRGLVRADF ILDGEGTPWL LELNTIPGMT ELSLAPKAAH AVGIEMPQLA
310
ERILQGARLK
Length:310
Mass (Da):33,548
Last modified:December 12, 2006 - v1
Checksum:i3FB922A8F6763507
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000471 Genomic DNA Translation: ABK43271.1
RefSeqiWP_011712431.1, NC_008576.1

Genome annotation databases

EnsemblBacteriaiABK43271; ABK43271; Mmc1_0750
KEGGimgm:Mmc1_0750

Similar proteinsi

Entry informationi

Entry nameiDDL_MAGMM
AccessioniPrimary (citable) accession number: A0L5M8
Entry historyiIntegrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: December 12, 2006
Last modified: February 28, 2018
This is version 79 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