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B5YFT1 (DDL_THEYD) Reviewed, UniProtKB/Swiss-Prot

Last modified May 14, 2014. Version 46. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
D-alanine--D-alanine ligase

EC=6.3.2.4
Alternative name(s):
D-Ala-D-Ala ligase
D-alanylalanine synthetase
Gene names
Name:ddl
Ordered Locus Names:THEYE_A1319
OrganismThermodesulfovibrio yellowstonii (strain ATCC 51303 / DSM 11347 / YP87) [Reference proteome] [HAMAP]
Taxonomic identifier289376 [NCBI]
Taxonomic lineageBacteriaNitrospiraeNitrospiralesNitrospiraceaeThermodesulfovibrio

Protein attributes

Sequence length304 AA.
Sequence statusComplete.
Protein existenceInferred from homology

General annotation (Comments)

Function

Cell wall formation By similarity. HAMAP-Rule MF_00047

Catalytic activity

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

Cofactor

Binds 2 magnesium or manganese ions per subunit By similarity.

Pathway

Cell wall biogenesis; peptidoglycan biosynthesis. HAMAP-Rule MF_00047

Subcellular location

Cytoplasm By similarity HAMAP-Rule MF_00047.

Sequence similarities

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

Contains 1 ATP-grasp domain.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 304304D-alanine--D-alanine ligase HAMAP-Rule MF_00047
PRO_1000091212

Regions

Domain99 – 296198ATP-grasp
Nucleotide binding127 – 18256ATP By similarity

Sites

Metal binding2501Magnesium or manganese 1 By similarity
Metal binding2631Magnesium or manganese 1 By similarity
Metal binding2631Magnesium or manganese 2 By similarity
Metal binding2651Magnesium or manganese 2 By similarity

Sequences

Sequence LengthMass (Da)Tools
B5YFT1 [UniParc].

Last modified November 25, 2008. Version 1.
Checksum: 1603183954A06AF8

FASTA30433,164
        10         20         30         40         50         60 
MKVGVIAGGI SSEREVSLRS GQAVFNALKE LGYDVVFIDA GIDLCEKIKI EKIDIAFLVL 

        70         80         90        100        110        120 
HGGWGENGAV QGMLEVMGIP YTGSGVLASA LAMDKEASKK IFLYHGIPVP PFKVLNKKDY 

       130        140        150        160        170        180 
ISSAVSLSSF SFPCVVKPAE EGSSIGVNIV KNEREFKNAI NEAFQFGKRV IIEKFIEGRE 

       190        200        210        220        230        240 
IHIGVLGDKA LGGVEVRPKK GFYSYEAKYT KGLTEYILPP EIDNALYEKL KELGLKAHKS 

       250        260        270        280        290        300 
LNCKGGTRVD MIVDQQGNPY VLEVNTIPGM TETSLLPKIA SLAGYDFKGL VKEILELSLK 


NNEK 

« Hide

References

[1]"The complete genome sequence of Thermodesulfovibrio yellowstonii strain ATCC 51303 / DSM 11347 / YP87."
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 51303 / DSM 11347 / YP87.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
CP001147 Genomic DNA. Translation: ACI21742.1.
RefSeqYP_002249129.1. NC_011296.1.

3D structure databases

ProteinModelPortalB5YFT1.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING289376.THEYE_A1319.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaACI21742; ACI21742; THEYE_A1319.
GeneID6941962.
KEGGtye:THEYE_A1319.
PATRIC23909657. VBITheYel104483_1286.

Phylogenomic databases

eggNOGCOG1181.
HOGENOMHOG000011592.
KOK01921.
OMAANDTQYR.
OrthoDBEOG6ND0KB.

Enzyme and pathway databases

BioCycTYEL289376:GH9L-1311-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 nameDDL_THEYD
AccessionPrimary (citable) accession number: B5YFT1
Entry history
Integrated into UniProtKB/Swiss-Prot: March 24, 2009
Last sequence update: November 25, 2008
Last modified: May 14, 2014
This is version 46 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

PATHWAY comments

Index of metabolic and biosynthesis pathways