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D5SME2

- D5SME2_PLAL2

UniProt

D5SME2 - D5SME2_PLAL2

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Protein

D-alanine--D-alanine ligase

Gene
ddl, Plim_0009
Organism
Planctomyces limnophilus (strain ATCC 43296 / DSM 3776 / IFAM 1008 / 290)
Status
Unreviewed - Annotation score: 3 out of 5 - Protein inferred from homologyi

Functioni

Cell wall formation By similarity.UniRule annotationSAAS annotations

Catalytic activityi

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

Cofactori

Binds 2 magnesium or manganese ions per subunit By similarity.UniRule annotationSAAS annotations

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi266 – 2661Magnesium or manganese 1 By similarityUniRule annotation
Metal bindingi279 – 2791Magnesium or manganese 1 By similarityUniRule annotation
Metal bindingi279 – 2791Magnesium or manganese 2 By similarityUniRule annotation
Metal bindingi281 – 2811Magnesium or manganese 2 By similarityUniRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi143 – 19856ATP By similarityUniRule annotationAdd
BLAST

GO - Molecular functioni

  1. ATP binding Source: UniProtKB-HAMAP
  2. D-alanine-D-alanine ligase activity Source: UniProtKB-HAMAP
  3. magnesium ion binding Source: UniProtKB-HAMAP
  4. manganese ion binding Source: UniProtKB-HAMAP

GO - Biological processi

  1. peptidoglycan biosynthetic process Source: UniProtKB-HAMAP
  2. regulation of cell shape Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

LigaseUniRule annotationSAAS annotationsImported

Keywords - Biological processi

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

Keywords - Ligandi

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

Enzyme and pathway databases

BioCyciPLIM521674:GKE7-9-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 ligase
D-alanylalanine synthetase
Gene namesi
Name:ddlUniRule annotation
Ordered Locus Names:Plim_0009Imported
OrganismiPlanctomyces limnophilus (strain ATCC 43296 / DSM 3776 / IFAM 1008 / 290)Imported
Taxonomic identifieri521674 [NCBI]
Taxonomic lineageiBacteriaPlanctomycetesPlanctomycetiaPlanctomycetalesPlanctomycetaceaePlanctomyces
ProteomesiUP000002220: Chromosome

Subcellular locationi

Cytoplasm By similarity UniRule annotationSAAS annotations

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

CytoplasmUniRule annotationSAAS annotations

Structurei

3D structure databases

ProteinModelPortaliD5SME2.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini114 – 312199ATP-grasp By similarityUniRule annotationAdd
BLAST

Sequence similaritiesi

Contains 1 ATP-grasp domain.UniRule annotation
Contains ATP-grasp domain.SAAS annotations

Phylogenomic databases

HOGENOMiHOG000011592.
KOiK01921.
OMAiLCRWIVE.

Family and domain databases

Gene3Di3.30.1490.20. 1 hit.
3.30.470.20. 2 hits.
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. 2 hits.
[Graphical view]
SUPFAMiSSF52440. SSF52440. 1 hit.
TIGRFAMsiTIGR01205. D_ala_D_alaTIGR. 1 hit.
PROSITEiPS50975. ATP_GRASP. 1 hit.
PS00844. DALA_DALA_LIGASE_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

D5SME2-1 [UniParc]FASTAAdd to Basket

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MSRGNIQSAA TNPPRWNIAL LAGGDSDERS ISLRSGQAVC QALQERGHFI    50
LPIDPAIVSL KGMDWNGFDA VFIALHGRFG EDGGVQTLLE ESGIPYTGSS 100
SQASRLAFDK RIAKQNFDRM QVPTPAWCEL SPHESFDSLL MKAKELGWPV 150
VIKPASQGSS LGVSIVRQPE QLQSAYERAR HYDEALIMEA AIVGSEWTVG 200
LHDDEILPPI CIETDREFFD WVAKYEDDHT RYIFDKPLPA TCRQKLETAC 250
RGAVHALGVT GISRVDLMLD SEGNPWVLEI NTIPGLTDHS LVPKAAQQAG 300
WSLGELCEES IHRAIQRRPR RPHLLRRASF STQARQRP 338
Length:338
Mass (Da):37,544
Last modified:July 13, 2010 - v1
Checksum:i89F692F5E89B1E8B
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP001744 Genomic DNA. Translation: ADG65862.1.
RefSeqiWP_013108293.1. NC_014148.1.
YP_003628061.1. NC_014148.1.

Genome annotation databases

EnsemblBacteriaiADG65862; ADG65862; Plim_0009.
GeneIDi9136662.
KEGGiplm:Plim_0009.
PATRICi38235438. VBIPlaLim6916_0010.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP001744 Genomic DNA. Translation: ADG65862.1 .
RefSeqi WP_013108293.1. NC_014148.1.
YP_003628061.1. NC_014148.1.

3D structure databases

ProteinModelPortali D5SME2.
ModBasei Search...
MobiDBi Search...

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ADG65862 ; ADG65862 ; Plim_0009 .
GeneIDi 9136662.
KEGGi plm:Plim_0009.
PATRICi 38235438. VBIPlaLim6916_0010.

Phylogenomic databases

HOGENOMi HOG000011592.
KOi K01921.
OMAi LCRWIVE.

Enzyme and pathway databases

UniPathwayi UPA00219 .
BioCyci PLIM521674:GKE7-9-MONOMER.

Family and domain databases

Gene3Di 3.30.1490.20. 1 hit.
3.30.470.20. 2 hits.
3.40.50.20. 1 hit.
HAMAPi MF_00047. Dala_Dala_lig.
InterProi IPR011761. 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 ]
PANTHERi PTHR23132. PTHR23132. 1 hit.
Pfami PF07478. Dala_Dala_lig_C. 1 hit.
PF01820. Dala_Dala_lig_N. 2 hits.
[Graphical view ]
SUPFAMi SSF52440. SSF52440. 1 hit.
TIGRFAMsi TIGR01205. D_ala_D_alaTIGR. 1 hit.
PROSITEi PS50975. ATP_GRASP. 1 hit.
PS00844. DALA_DALA_LIGASE_2. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 43296 / DSM 3776 / IFAM 1008 / 290.

Entry informationi

Entry nameiD5SME2_PLAL2
AccessioniPrimary (citable) accession number: D5SME2
Entry historyi
Integrated into UniProtKB/TrEMBL: July 13, 2010
Last sequence update: July 13, 2010
Last modified: September 3, 2014
This is version 30 of the entry and version 1 of the sequence. [Complete history]
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Keywords - Technical termi

Complete proteome

External Data

Dasty 3

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