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Protein

D-alanine--D-alanine ligase

Gene

ddl

Organism
Nitrosomonas europaea (strain ATCC 19718 / CIP 103999 / KCTC 2705 / NBRC 14298)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

Cell wall formation.

Catalytic activityi

ATP + 2 D-alanine = ADP + phosphate + D-alanyl-D-alanine.

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.
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 bindingi254Magnesium or manganese 11
Metal bindingi267Magnesium or manganese 11
Metal bindingi267Magnesium or manganese 21
Metal bindingi269Magnesium or manganese 21

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi131 – 186ATPAdd 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 ligase (EC:6.3.2.4)
Alternative name(s):
D-Ala-D-Ala ligase
D-alanylalanine synthetase
Gene namesi
Name:ddl
Synonyms:ddlB
Ordered Locus Names:NE0994
OrganismiNitrosomonas europaea (strain ATCC 19718 / CIP 103999 / KCTC 2705 / NBRC 14298)
Taxonomic identifieri228410 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaBetaproteobacteriaNitrosomonadalesNitrosomonadaceaeNitrosomonas
Proteomesi
  • UP000001416 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm

GO - Cellular componenti

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001778471 – 305D-alanine--D-alanine ligaseAdd BLAST305

Interactioni

Protein-protein interaction databases

STRINGi228410.NE0994.

Structurei

3D structure databases

ProteinModelPortaliQ82VS0.
SMRiQ82VS0.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini105 – 300ATP-graspAdd BLAST196

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiENOG4105CPF. Bacteria.
COG1181. LUCA.
HOGENOMiHOG000011592.
KOiK01921.
OMAiMQGLLEC.
OrthoDBiPOG091H00GT.
PhylomeDBiQ82VS0.

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.

Q82VS0-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MNTRDVGKVA VLLGGRSAER EISLRSGQAV LAALQRSRVN AHAFDPAGQP
60 70 80 90 100
LENLLQQGFD RVFIALHGRY GEDGSVQGAL ELMELPYTGS GILASALAMD
110 120 130 140 150
KWRTKMIWQA AGINTPDYVM LDASSRFRDV ADRLGLPLII KPAREGSTLG
160 170 180 190 200
LNKVDNEQDF RSAYQAAAEY DSLVLAEQFI QGIELTAAIL DDMPLPLVRI
210 220 230 240 250
DVAEGLYDYQ AKYFSESTRY TCPSGLSAAL TTRIQEQALY AHRILGCTGW
260 270 280 290 300
SRVDLILDEN EQPFFLETNT SPGMTDHSLV PMAAKAAGIS FDELVVQILE

LSCEH
Length:305
Mass (Da):33,442
Last modified:June 1, 2003 - v1
Checksum:i54B1F11950432305
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AL954747 Genomic DNA. Translation: CAD84905.1.
RefSeqiWP_011111603.1. NC_004757.1.

Genome annotation databases

EnsemblBacteriaiCAD84905; CAD84905; NE0994.
KEGGineu:NE0994.

Similar proteinsi

Entry informationi

Entry nameiDDL_NITEU
AccessioniPrimary (citable) accession number: Q82VS0
Entry historyiIntegrated into UniProtKB/Swiss-Prot: December 15, 2003
Last sequence update: June 1, 2003
Last modified: November 22, 2017
This is version 99 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