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Protein

D-alanine--D-alanine ligase

Gene

ddl

Organism
Geodermatophilus obscurus (strain ATCC 25078 / DSM 43160 / JCM 3152 / G-20)
Status
Unreviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

Cell wall formation.UniRule annotationSAAS annotation

Catalytic activityi

ATP + 2 D-alanine = ADP + phosphate + D-alanyl-D-alanine.UniRule annotationSAAS annotation

Cofactori

Mg2+UniRule annotationSAAS annotation, Mn2+UniRule annotationSAAS annotationNote: Binds 2 magnesium or manganese ions per subunit.UniRule annotationSAAS annotation

Pathway:ipeptidoglycan biosynthesis

This protein is involved in the pathway peptidoglycan biosynthesis, which is part of Cell wall biogenesis.UniRule annotationSAAS annotation
View all proteins of this organism that are known to be involved in the pathway peptidoglycan biosynthesis and in Cell wall biogenesis.

Pathway:ipeptidoglycan 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)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi316 – 3161Magnesium or manganese 1UniRule annotation
Metal bindingi333 – 3331Magnesium or manganese 1UniRule annotation
Metal bindingi333 – 3331Magnesium or manganese 2UniRule annotation
Metal bindingi335 – 3351Magnesium or manganese 2UniRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi186 – 24156ATPUniRule annotationAdd
BLAST

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

LigaseUniRule annotationSAAS annotation

Keywords - Biological processi

Cell shape, Cell wall biogenesis/degradationUniRule annotationSAAS annotation, Peptidoglycan synthesisUniRule annotationSAAS annotation

Keywords - Ligandi

ATP-bindingUniRule annotationSAAS annotation, MagnesiumUniRule annotationSAAS annotation, ManganeseUniRule annotationSAAS annotation, Metal-bindingUniRule annotationSAAS annotation, Nucleotide-binding

Enzyme and pathway databases

BioCyciGOBS526225:GI00-4090-MONOMER.
UniPathwayiUPA00219.
UPA00219.

Names & Taxonomyi

Protein namesi
Recommended name:
D-alanine--D-alanine ligaseUniRule annotationSAAS annotation (EC:6.3.2.4UniRule annotationSAAS annotation)
Alternative name(s):
D-Ala-D-Ala ligaseUniRule annotation
D-alanylalanine synthetaseUniRule annotation
Gene namesi
Name:ddlUniRule annotation
Ordered Locus Names:Gobs_4044Imported
OrganismiGeodermatophilus obscurus (strain ATCC 25078 / DSM 43160 / JCM 3152 / G-20)Imported
Taxonomic identifieri526225 [NCBI]
Taxonomic lineageiBacteriaActinobacteriaGeodermatophilalesGeodermatophilaceaeGeodermatophilus
ProteomesiUP000001382 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotationSAAS annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

CytoplasmUniRule annotationSAAS annotation

Interactioni

Protein-protein interaction databases

STRINGi526225.Gobs_4044.

Structurei

3D structure databases

ProteinModelPortaliD2SEH3.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini151 – 366216ATP-graspUniRule annotationAdd
BLAST

Sequence similaritiesi

Belongs to the D-alanine--D-alanine ligase family.UniRule annotation
Contains 1 ATP-grasp domain.UniRule annotation

Phylogenomic databases

HOGENOMiHOG000011593.
KOiK01921.
OMAiMDKIAMK.

Family and domain databases

Gene3Di3.30.1490.20. 1 hit.
3.30.470.20. 1 hit.
3.40.50.20. 1 hit.
HAMAPiMF_00047. Dala_Dala_lig.
InterProiIPR011761. ATP-grasp.
IPR013815. ATP_grasp_subdomain_1.
IPR013816. ATP_grasp_subdomain_2.
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.
[Graphical view]
PANTHERiPTHR23132. PTHR23132. 1 hit.
PfamiPF07478. Dala_Dala_lig_C. 1 hit.
PF01820. Dala_Dala_lig_N. 1 hit.
[Graphical view]
PIRSFiPIRSF039102. Ddl/VanB. 1 hit.
SUPFAMiSSF52440. SSF52440. 1 hit.
TIGRFAMsiTIGR01205. D_ala_D_alaTIGR. 1 hit.
PROSITEiPS50975. ATP_GRASP. 1 hit.
PS00843. DALA_DALA_LIGASE_1. 1 hit.
PS00844. DALA_DALA_LIGASE_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

D2SEH3-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSGQAGKLRI AVVFGGRSAE HSISCVSAGA VLAGLDPDRY DVVPVGIARD
60 70 80 90 100
GRWVLAEPAQ RLAIADGELP EVTGGTAVSL VGDPGGRGLA VLEPAAGVAS
110 120 130 140 150
ALTEVDVVFP VLHGAYGEDG TIQGLLEMSG IPYVGSGVFA SAASMDKEFT
160 170 180 190 200
KKLLAAAGLP QGVHVVLRDA SGAVSADPGV LDDADRERLG LPVFVKPCRA
210 220 230 240 250
GSSIGITKVT DWAQFPEAVA TAASVDPKVI VEAAVPGREV ECGVLARPDG
260 270 280 290 300
PPQASLPAEI RLRPGTEWYD FAAKYLDDAV DFDVPADLTP EQTRLVQETA
310 320 330 340 350
RKAFLALDCR GLARVDFFLG TGPDGADRLV VNEVNTMPGF TPISMYPRMW
360 370 380
AATGVDFAAL VDRLVEVALA ARPAAEATLD GTRA
Length:384
Mass (Da):39,794
Last modified:March 2, 2010 - v1
Checksum:i47FE5DD835A17D17
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001867 Genomic DNA. Translation: ADB76609.1.

Genome annotation databases

EnsemblBacteriaiADB76609; ADB76609; Gobs_4044.
KEGGigob:Gobs_4044.
PATRICi32177235. VBIGeoObs49253_4016.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001867 Genomic DNA. Translation: ADB76609.1.

3D structure databases

ProteinModelPortaliD2SEH3.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi526225.Gobs_4044.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiADB76609; ADB76609; Gobs_4044.
KEGGigob:Gobs_4044.
PATRICi32177235. VBIGeoObs49253_4016.

Phylogenomic databases

HOGENOMiHOG000011593.
KOiK01921.
OMAiMDKIAMK.

Enzyme and pathway databases

UniPathwayiUPA00219.
UPA00219.
BioCyciGOBS526225:GI00-4090-MONOMER.

Family and domain databases

Gene3Di3.30.1490.20. 1 hit.
3.30.470.20. 1 hit.
3.40.50.20. 1 hit.
HAMAPiMF_00047. Dala_Dala_lig.
InterProiIPR011761. ATP-grasp.
IPR013815. ATP_grasp_subdomain_1.
IPR013816. ATP_grasp_subdomain_2.
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.
[Graphical view]
PANTHERiPTHR23132. PTHR23132. 1 hit.
PfamiPF07478. Dala_Dala_lig_C. 1 hit.
PF01820. Dala_Dala_lig_N. 1 hit.
[Graphical view]
PIRSFiPIRSF039102. Ddl/VanB. 1 hit.
SUPFAMiSSF52440. SSF52440. 1 hit.
TIGRFAMsiTIGR01205. D_ala_D_alaTIGR. 1 hit.
PROSITEiPS50975. ATP_GRASP. 1 hit.
PS00843. DALA_DALA_LIGASE_1. 1 hit.
PS00844. DALA_DALA_LIGASE_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 25078 / DSM 43160 / JCM 3152 / G-20Imported.

Entry informationi

Entry nameiD2SEH3_GEOOG
AccessioniPrimary (citable) accession number: D2SEH3
Entry historyi
Integrated into UniProtKB/TrEMBL: March 2, 2010
Last sequence update: March 2, 2010
Last modified: July 22, 2015
This is version 40 of the entry and version 1 of the sequence. [Complete history]
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteomeImported

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.