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Reviewed, UniProtKB/Swiss-Prot Q89PS5 (DDLB_BRAJA)

Last modified June 16, 2009. Version 43. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data | Customize display text xml rdf/xml gff fasta
Names and origin · Protein attributes · General annotation (Comments) · Ontologies · Sequence annotation (Features) · Sequences · References · Cross-references · Entry information · Relevant documents

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Names and origin

Protein namesRecommended name:
    D-alanine--D-alanine ligase B
    EC=6.3.2.4
Alternative name(s):
    D-alanylalanine synthetase B
    D-Ala-D-Ala ligase B
Gene names
Name: ddlA
Synonyms: ddlB
Ordered Locus Names: blr3405
OrganismBradyrhizobium japonicum [Complete proteome] [HAMAP]
Taxonomic identifier375 [NCBI]
Taxonomic lineageBacteria › Proteobacteria › Alphaproteobacteria › Rhizobiales › Bradyrhizobiaceae › Bradyrhizobium

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Protein attributes

Sequence length376 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is not processed.
Protein existenceInferred from homology.

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General annotation (Comments)

Function

Cell wall formation By similarity.

Catalytic activity

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

Cofactor

Binds 2 magnesium or manganese ions per subunit By similarity.

Pathway

Cell wall biogenesis; peptidoglycan biosynthesis. HAMAP MF_00047

Subcellular location

Cytoplasm By similarity.

Sequence similarities

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

Contains 1 ATP-grasp domain.

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Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 376376D-alanine--D-alanine ligase B HAMAP 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

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Sequences

Sequence LengthMass (Da)Tools
Q89PS5-1 [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

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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: 12597275] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: USDA 110.

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Cross-references

Sequence databases

BA000040 Genomic DNA. Translation: BAC48670.1.
RefSeqNP_770045.1.

3D structure databases

HSSPHSSP built from PDB template 1IOW based on UniProtKB P07862.
ModBaseSearch...

Genome annotation databases

GeneID1050703.
GenomeReviewsGene locus blr3405 in contig BA000040_GR.
KEGGbja:blr3405.
NMPDRfig|224911.1.peg.3405.

Organism-specific databases

CMRSearch...

Phylogenomic databases

HOGENOMQ89PS5.
OMAQ89PS5. CKAINAY.

Enzyme and pathway databases

BioCycBJAP224911:BLR3405-MON.
BRENDA6.3.2.4. 280.

Family and domain databases

HAMAPMF_00047.
[Tree]
InterProIPR011761. ATP-grasp.
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.
IPR013817. Pre-ATP_grasp.
[Graphical view]
Gene3DG3DSA:3.30.470.20. ATP_grasp_subdomain_2. 1 hit.
G3DSA:3.40.50.20. Pre-ATP_grasp. 1 hit.
PfamPF07478. Dala_Dala_lig_C. 1 hit.
PF01820. Dala_Dala_lig_N. 1 hit.
[Graphical view]
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...

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Entry information

Entry nameDDLB_BRAJA
AccessionPrimary (citable) accession number: Q89PS5
Entry history
Integrated into UniProtKB/Swiss-Prot: December 15, 2003
Last sequence update: June 1, 2003
Last modified: June 16, 2009
This is version 43 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation projectHAMAP (High-quality Automated and Manual Annotation of microbial Proteomes)

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Relevant documents

PATHWAY comments

Index of metabolic and biosynthesis pathways

SIMILARITY comments

Index of protein domains and families

Names and origin · Protein attributes · General annotation (Comments) · Ontologies · Sequence annotation (Features) · Sequences · References · Cross-references · Entry information · Relevant documents