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Protein

D-alanine--D-alanine ligase

Gene

ddl

Organism
Shewanella sp. (strain W3-18-1)
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 bindingi284Magnesium or manganese 1UniRule annotation1
Metal bindingi297Magnesium or manganese 1UniRule annotation1
Metal bindingi297Magnesium or manganese 2UniRule annotation1
Metal bindingi299Magnesium or manganese 2UniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi154 – 209ATPUniRule 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

BioCyciSSP351745:G1G7O-2336-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:Sputw3181_2224
OrganismiShewanella sp. (strain W3-18-1)
Taxonomic identifieri351745 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaAlteromonadalesShewanellaceaeShewanella

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_10000747961 – 337D-alanine--D-alanine ligaseAdd BLAST337

Structurei

3D structure databases

ProteinModelPortaliA1RK54
SMRiA1RK54
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini124 – 330ATP-graspUniRule annotationAdd BLAST207

Sequence similaritiesi

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

Phylogenomic databases

HOGENOMiHOG000011592
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.

A1RK54-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSRINLLLLC GGGSAEHDIS LMSANYFESS LAKSDQFSVL RVELDKLGQY
60 70 80 90 100
RTAAGDECEL TNNREIRFRD ETKAPWPVDY VIPCIHGYPG ETGDIQSYFN
110 120 130 140 150
LIQLPYFGCE SEASSNCFNK ITAKMWFSAL GIPNTPYIFL HQYDDEAISQ
160 170 180 190 200
AQTALANWGS IFIKAASQGS SVGCYKVDDS SKVAQVLKDA FGYAPYVVVE
210 220 230 240 250
KTIKARELEV AVYEYNGEIV ATLPGEIICD TNTFYTFDEK YAKSSKARTD
260 270 280 290 300
VVAKDVSVEL SEQIRAYAIK AFKGMKLRHL SRIDFFLTAE NEILLNEINT
310 320 330
FPGSTPISMF PKMLQNHGHD FTEYLSLVIN NQLSAKD
Length:337
Mass (Da):37,699
Last modified:February 6, 2007 - v1
Checksum:iDDFDF5D66C245D98
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000503 Genomic DNA Translation: ABM25049.1
RefSeqiWP_011789515.1, NC_008750.1

Genome annotation databases

EnsemblBacteriaiABM25049; ABM25049; Sputw3181_2224
KEGGishw:Sputw3181_2224

Similar proteinsi

Entry informationi

Entry nameiDDL_SHESW
AccessioniPrimary (citable) accession number: A1RK54
Entry historyiIntegrated into UniProtKB/Swiss-Prot: May 20, 2008
Last sequence update: February 6, 2007
Last modified: March 28, 2018
This is version 77 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

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