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B5YDR1

- B5YDR1_DICT6

UniProt

B5YDR1 - B5YDR1_DICT6

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Protein
D-alanine--D-alanine ligase
Gene
ddl, DICTH_0803
Organism
Dictyoglomus thermophilum (strain ATCC 35947 / DSM 3960 / H-6-12)
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 bindingi258 – 2581Magnesium or manganese 1 By similarityUniRule annotation
Metal bindingi272 – 2721Magnesium or manganese 1 By similarityUniRule annotation
Metal bindingi272 – 2721Magnesium or manganese 2 By similarityUniRule annotation
Metal bindingi274 – 2741Magnesium or manganese 2 By similarityUniRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi132 – 18756ATP By similarityUniRule annotation
Add
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
Complete GO annotation...

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

BioCyciDTHE309799:GHF9-796-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:DICTH_0803Imported
OrganismiDictyoglomus thermophilum (strain ATCC 35947 / DSM 3960 / H-6-12)Imported
Taxonomic identifieri309799 [NCBI]
Taxonomic lineageiBacteriaDictyoglomiDictyoglomalesDictyoglomaceaeDictyoglomus
ProteomesiUP000001733: 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

Interactioni

Protein-protein interaction databases

STRINGi309799.DICTH_0803.

Structurei

3D structure databases

ProteinModelPortaliB5YDR1.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini99 – 305207ATP-grasp By similarityUniRule annotation
Add
BLAST

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiCOG1181.
HOGENOMiHOG000011592.
KOiK01921.
OMAiRSAYGIY.
OrthoDBiEOG6ND0KB.

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.
PS00843. DALA_DALA_LIGASE_1. 1 hit.
PS00844. DALA_DALA_LIGASE_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

B5YDR1-1 [UniParc]FASTAAdd to Basket

« Hide

MKIGVLIGVK SSEKEIAFKT ARNIVNALKL KGYDYIEIPI DENVVENIKK    50
ANINVAIISA HGKYGEDGTI QGLLELLGIP YVGSGVLASA LALDKTMAKK 100
IFTFHNIPTP KWIELSKKEL ETKDLNNIVK NVSKLKKPWI IKPATQGSTI 150
GLSLASTEEE LLKGIELAFK YDENIIIEEY IKGKEITAGI YDINNPVCLP 200
LIEIIPKTGF YDYETKYTPG LSDHIIPARL PKEVYEKAQG LGILAHQALG 250
CRHLSRVDMI VEENTNHIYV LEVNTIPGMT ETSLYPEAAK AFGIDFPELI 300
DSFIKATLKN I 311
Length:311
Mass (Da):34,466
Last modified:November 25, 2008 - v1
Checksum:iABE69617CE74B8F4
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP001146 Genomic DNA. Translation: ACI18497.1.
RefSeqiWP_012547129.1. NC_011297.1.
YP_002250669.1. NC_011297.1.

Genome annotation databases

EnsemblBacteriaiACI18497; ACI18497; DICTH_0803.
GeneIDi6946610.
KEGGidth:DICTH_0803.
PATRICi21806244. VBIDicThe33784_0790.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP001146 Genomic DNA. Translation: ACI18497.1 .
RefSeqi WP_012547129.1. NC_011297.1.
YP_002250669.1. NC_011297.1.

3D structure databases

ProteinModelPortali B5YDR1.
ModBasei Search...

Protein-protein interaction databases

STRINGi 309799.DICTH_0803.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ACI18497 ; ACI18497 ; DICTH_0803 .
GeneIDi 6946610.
KEGGi dth:DICTH_0803.
PATRICi 21806244. VBIDicThe33784_0790.

Phylogenomic databases

eggNOGi COG1181.
HOGENOMi HOG000011592.
KOi K01921.
OMAi RSAYGIY.
OrthoDBi EOG6ND0KB.

Enzyme and pathway databases

UniPathwayi UPA00219 .
BioCyci DTHE309799:GHF9-796-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.
PS00843. DALA_DALA_LIGASE_1. 1 hit.
PS00844. DALA_DALA_LIGASE_2. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. "The complete genome sequence of Dictyoglomus thermophilum strain ATCC 35947 / DSM 3960 / H-6-12."
    Dodson R.J., Durkin A.S., Wu M., Eisen J., Sutton G.
    Submitted (AUG-2008) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 35947 / DSM 3960 / H-6-12.

Entry informationi

Entry nameiB5YDR1_DICT6
AccessioniPrimary (citable) accession number: B5YDR1
Entry historyi
Integrated into UniProtKB/TrEMBL: November 25, 2008
Last sequence update: November 25, 2008
Last modified: September 3, 2014
This is version 44 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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