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B5YDR1 (B5YDR1_DICT6) Unreviewed, UniProtKB/TrEMBL

Last modified February 19, 2014. Version 41. Feed History...

Clusters with 100%, 90%, 50% identity | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry infoCustomize order

Names and origin

Protein namesRecommended name:
D-alanine--D-alanine ligase HAMAP-Rule MF_00047

EC=6.3.2.4 HAMAP-Rule MF_00047
Alternative name(s):
D-Ala-D-Ala ligase HAMAP-Rule MF_00047
D-alanylalanine synthetase HAMAP-Rule MF_00047
Gene names
Name:ddl HAMAP-Rule MF_00047
Ordered Locus Names:DICTH_0803 EMBL ACI18497.1
OrganismDictyoglomus thermophilum (strain ATCC 35947 / DSM 3960 / H-6-12) [Complete proteome] [HAMAP] EMBL ACI18497.1
Taxonomic identifier309799 [NCBI]
Taxonomic lineageBacteriaDictyoglomiDictyoglomalesDictyoglomaceaeDictyoglomus

Protein attributes

Sequence length311 AA.
Sequence statusComplete.
Protein existenceInferred from homology

General annotation (Comments)

Function

Cell wall formation By similarity. HAMAP-Rule MF_00047 SAAS SAAS005905

Catalytic activity

ATP + 2 D-alanine = ADP + phosphate + D-alanyl-D-alanine. HAMAP-Rule MF_00047 SAAS SAAS005905

Cofactor

Binds 2 magnesium or manganese ions per subunit By similarity. HAMAP-Rule MF_00047 SAAS SAAS005905

Pathway

Cell wall biogenesis; peptidoglycan biosynthesis. HAMAP-Rule MF_00047 SAAS SAAS005905

Subcellular location

Cytoplasm By similarity HAMAP-Rule MF_00047 SAAS SAAS005905.

Sequence similarities

Belongs to the D-alanine--D-alanine ligase family. HAMAP-Rule MF_00047

Contains 1 ATP-grasp domain. HAMAP-Rule MF_00047

Contains ATP-grasp domain. SAAS SAAS005905

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Regions

Domain99 – 305207ATP-grasp By similarity HAMAP-Rule MF_00047
Nucleotide binding132 – 18756ATP By similarity HAMAP-Rule MF_00047

Sites

Metal binding2581Magnesium or manganese 1 By similarity HAMAP-Rule MF_00047
Metal binding2721Magnesium or manganese 1 By similarity HAMAP-Rule MF_00047
Metal binding2721Magnesium or manganese 2 By similarity HAMAP-Rule MF_00047
Metal binding2741Magnesium or manganese 2 By similarity HAMAP-Rule MF_00047

Sequences

Sequence LengthMass (Da)Tools
B5YDR1 [UniParc].

Last modified November 25, 2008. Version 1.
Checksum: ABE69617CE74B8F4

FASTA31134,466
        10         20         30         40         50         60 
MKIGVLIGVK SSEKEIAFKT ARNIVNALKL KGYDYIEIPI DENVVENIKK ANINVAIISA 

        70         80         90        100        110        120 
HGKYGEDGTI QGLLELLGIP YVGSGVLASA LALDKTMAKK IFTFHNIPTP KWIELSKKEL 

       130        140        150        160        170        180 
ETKDLNNIVK NVSKLKKPWI IKPATQGSTI GLSLASTEEE LLKGIELAFK YDENIIIEEY 

       190        200        210        220        230        240 
IKGKEITAGI YDINNPVCLP LIEIIPKTGF YDYETKYTPG LSDHIIPARL PKEVYEKAQG 

       250        260        270        280        290        300 
LGILAHQALG CRHLSRVDMI VEENTNHIYV LEVNTIPGMT ETSLYPEAAK AFGIDFPELI 

       310 
DSFIKATLKN I 

« Hide

References

[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.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
CP001146 Genomic DNA. Translation: ACI18497.1.
RefSeqYP_002250669.1. NC_011297.1.

3D structure databases

ProteinModelPortalB5YDR1.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING309799.DICTH_0803.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaACI18497; ACI18497; DICTH_0803.
GeneID6946610.
KEGGdth:DICTH_0803.
PATRIC21806244. VBIDicThe33784_0790.

Organism-specific databases

CMRSearch...

Phylogenomic databases

eggNOGCOG1181.
HOGENOMHOG000011592.
KOK01921.
OMADTQYRIP.
OrthoDBEOG6ND0KB.
ProtClustDBCLSK2409199.

Enzyme and pathway databases

BioCycDTHE309799:GHF9-796-MONOMER.
UniPathwayUPA00219.

Family and domain databases

Gene3D3.30.1490.20. 1 hit.
3.30.470.20. 2 hits.
3.40.50.20. 1 hit.
HAMAPMF_00047. Dala_Dala_lig.
InterProIPR011761. 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]
PANTHERPTHR23132. PTHR23132. 1 hit.
PfamPF07478. Dala_Dala_lig_C. 1 hit.
PF01820. Dala_Dala_lig_N. 2 hits.
[Graphical view]
SUPFAMSSF52440. SSF52440. 1 hit.
TIGRFAMsTIGR01205. D_ala_D_alaTIGR. 1 hit.
PROSITEPS50975. ATP_GRASP. 1 hit.
PS00843. DALA_DALA_LIGASE_1. 1 hit.
PS00844. DALA_DALA_LIGASE_2. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry nameB5YDR1_DICT6
AccessionPrimary (citable) accession number: B5YDR1
Entry history
Integrated into UniProtKB/TrEMBL: November 25, 2008
Last sequence update: November 25, 2008
Last modified: February 19, 2014
This is version 41 of the entry and version 1 of the sequence. [Complete history]
Entry statusUnreviewed (UniProtKB/TrEMBL)