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Q89PS5 (DDLB_BRADU) Reviewed, UniProtKB/Swiss-Prot

Last modified February 19, 2014. Version 74. 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 B

EC=6.3.2.4
Alternative name(s):
D-Ala-D-Ala ligase B
D-alanylalanine synthetase B
Gene names
Name:ddlA
Synonyms:ddlB
Ordered Locus Names:blr3405
OrganismBradyrhizobium diazoefficiens (strain JCM 10833 / IAM 13628 / NBRC 14792 / USDA 110) [Reference proteome] [HAMAP]
Taxonomic identifier224911 [NCBI]
Taxonomic lineageBacteriaProteobacteriaAlphaproteobacteriaRhizobialesBradyrhizobiaceaeBradyrhizobium

Protein attributes

Sequence length376 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 – 376376D-alanine--D-alanine ligase B HAMAP-Rule MF_00047
PRO_0000177793

Regions

Domain155 – 361207ATP-grasp
Nucleotide binding184 – 23956ATP By similarity

Sites

Metal binding3161Magnesium or manganese 1 By similarity
Metal binding3281Magnesium or manganese 1 By similarity
Metal binding3281Magnesium or manganese 2 By similarity
Metal binding3301Magnesium or manganese 2 By similarity

Sequences

Sequence LengthMass (Da)Tools
Q89PS5 [UniParc].

Last modified June 1, 2003. Version 1.
Checksum: ADF689A391337460

FASTA37639,991
        10         20         30         40         50         60 
MTAYGGEMTK ERRKITVGLL FGGRSAEHEV SRASAANILR ALNSDRYDVY LIGISRDGRW 

        70         80         90        100        110        120 
FACDSGNGAG TGSTALTISD EAPEIGLVPG GRGRLVHCDG PTGSDAGSID VAFPILHGPN 

       130        140        150        160        170        180 
GEDGTVQGAL ELADVSFVGS SVTGSAVAMD KEVSKRLMRD AGLPVVPFLT TTASSRIEYA 

       190        200        210        220        230        240 
AAVAALGTPD LFVKPANLGS SVGVSRARSE EEFAASCALA FRYDRKILVE QALNGAREIE 

       250        260        270        280        290        300 
CSVLEESTGD IRASGLGEIV RASEHGFYSY QAKYIDADGA ALHIPADLPL LQARRLQELA 

       310        320        330        340        350        360 
VEVFNVLCCE GMARVDFFVQ GDEVFVNEAN TLPGFTSSSM YPKLWEASGL SQTDLMDKLI 

       370 
AHAFARHERR RALSFG 

« Hide

References

[1]"Complete genomic sequence of nitrogen-fixing symbiotic bacterium Bradyrhizobium japonicum USDA110."
Kaneko T., Nakamura Y., Sato S., Minamisawa K., Uchiumi T., Sasamoto S., Watanabe A., Idesawa K., Iriguchi M., Kawashima K., Kohara M., Matsumoto M., Shimpo S., Tsuruoka H., Wada T., Yamada M., Tabata S.
DNA Res. 9:189-197(2002) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: JCM 10833 / IAM 13628 / NBRC 14792 / USDA 110.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
BA000040 Genomic DNA. Translation: BAC48670.1.
RefSeqNP_770045.1. NC_004463.1.

3D structure databases

ProteinModelPortalQ89PS5.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING224911.blr3405.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaBAC48670; BAC48670; BAC48670.
GeneID1050703.
KEGGbja:blr3405.
PATRIC21190303. VBIBraJap65052_3409.

Phylogenomic databases

eggNOGCOG1181.
HOGENOMHOG000011593.
KOK01921.
OMAAFARHER.
OrthoDBEOG64BQ73.
ProtClustDBPRK01966.

Enzyme and pathway databases

BioCycBJAP224911:GJEJ-3429-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. 1 hit.
[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 nameDDLB_BRADU
AccessionPrimary (citable) accession number: Q89PS5
Entry history
Integrated into UniProtKB/Swiss-Prot: December 15, 2003
Last sequence update: June 1, 2003
Last modified: February 19, 2014
This is version 74 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