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Protein

D-alanine--D-alanine ligase

Gene

ddl

Organism
Hydrogenovibrio crunogenus (strain XCL-2) (Thiomicrospira crunogena)
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 bindingi263Magnesium or manganese 1UniRule annotation1
Metal bindingi276Magnesium or manganese 1UniRule annotation1
Metal bindingi276Magnesium or manganese 2UniRule annotation1
Metal bindingi278Magnesium or manganese 2UniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi142 – 195ATPUniRule annotationAdd BLAST54

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

BioCyciTCRU317025:G1G4Z-606-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:Tcr_0585
OrganismiHydrogenovibrio crunogenus (strain XCL-2) (Thiomicrospira crunogena)
Taxonomic identifieri317025 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaThiotrichalesPiscirickettsiaceaeHydrogenovibrio
Proteomesi
  • UP000002713 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003411901 – 313D-alanine--D-alanine ligaseAdd BLAST313

Interactioni

Protein-protein interaction databases

STRINGi317025.Tcr_0585

Structurei

3D structure databases

ProteinModelPortaliQ31I42
SMRiQ31I42
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini114 – 309ATP-graspUniRule annotationAdd BLAST196

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiENOG4105CPF Bacteria
COG1181 LUCA
HOGENOMiHOG000011592
KOiK01921
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.

Q31I42-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTQSSNQTKD RVQRLGKVAV LMGGVAAERD VSLRSGAEVL KALKSEGVDA
60 70 80 90 100
VGCDVTSVAQ LVEIAQKYDR AFIALHGRWG EDGGVQAVLD SLALPYTGSG
110 120 130 140 150
MTASALAMDK LRTKWLWKGV GLPTPAFIVV SPSRPLDVET FDLTFPVIVK
160 170 180 190 200
PSHEGSSIGM RKVDTLDALQ EAVDFAQQYD SEILIEQWIT GREFTCAVLD
210 220 230 240 250
GEALPMIQLK TDHDFYDFDA KYQSNTTEYL CPCGLEIAEE KRIQALVLQA
260 270 280 290 300
FDAVGARHWG RVDLMLDDQN QPWLIEINTV PGMTDHSLVP MAAKAVDLSF
310
SKLVLKLISL TLP
Length:313
Mass (Da):34,269
Last modified:December 6, 2005 - v1
Checksum:i6DEAA4BE8DA04B24
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000109 Genomic DNA Translation: ABB41181.1
RefSeqiWP_011370006.1, NC_007520.2

Genome annotation databases

EnsemblBacteriaiABB41181; ABB41181; Tcr_0585
KEGGitcx:Tcr_0585

Similar proteinsi

Entry informationi

Entry nameiDDL_HYDCU
AccessioniPrimary (citable) accession number: Q31I42
Entry historyiIntegrated into UniProtKB/Swiss-Prot: June 10, 2008
Last sequence update: December 6, 2005
Last modified: March 28, 2018
This is version 88 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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