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D0JER2 (D0JER2_YERPD) Unreviewed, UniProtKB/TrEMBL

Last modified February 19, 2014. Version 30. 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 EMBL ACY57396.1
Ordered Locus Names:YPD4_0487 EMBL ACY57396.1
OrganismYersinia pestis (strain D106004) [Complete proteome] [HAMAP] EMBL ACY57396.1
Taxonomic identifier637382 [NCBI]
Taxonomic lineageBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeYersinia

Protein attributes

Sequence length306 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

Domain101 – 303203ATP-grasp By similarity HAMAP-Rule MF_00047
Nucleotide binding134 – 18956ATP By similarity HAMAP-Rule MF_00047

Sites

Metal binding2571Magnesium or manganese 1 By similarity HAMAP-Rule MF_00047
Metal binding2701Magnesium or manganese 1 By similarity HAMAP-Rule MF_00047
Metal binding2701Magnesium or manganese 2 By similarity HAMAP-Rule MF_00047
Metal binding2721Magnesium or manganese 2 By similarity HAMAP-Rule MF_00047

Sequences

Sequence LengthMass (Da)Tools
D0JER2 [UniParc].

Last modified December 15, 2009. Version 1.
Checksum: C78CFF3D2E11F846

FASTA30633,150
        10         20         30         40         50         60 
MAEKVAVLLG GTSAEREVSL LSGQAVLAGL KEAGIDAYGV DTKDFPVTQL KEQGFDKVFI 

        70         80         90        100        110        120 
ALHGRGGEDG TLQGVLEFLQ LPYTGSGVMA SALTMDKLRT KLVWQALGLP ISPYVALNRQ 

       130        140        150        160        170        180 
QFETLSPEEL VACVAKLGLP LIVKPSHEGS SVGMSKVDHA SELQKALVEA FQHDSDVLIE 

       190        200        210        220        230        240 
KWLSGPEFTV AILGDEVLPS IRIQPPGVFY DYDAKYLSDK TQYFCPSGLS DESEQQLAAL 

       250        260        270        280        290        300 
ALQAYHALDC SGWGRVDVMQ DRDGHFYLLE VNTSPGMTSH SLVPMAARQY GLSFSQLVAR 


ILMLAD 

« Hide

References

[1]"Spatial variation of Yersinia pestis from Yunnan Province of China."
Zhang Z., Hai R., Song Z., Xia L., Liang Y., Cai H., Liang Y., Shen X., Zhang E., Xu J., Yu D., Yu X.J.
Am. J. Trop. Med. Hyg. 81:714-717(2009) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: D106004 EMBL ACY57396.1.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
CP001585 Genomic DNA. Translation: ACY57396.1.
RefSeqYP_005503699.1. NC_017154.1.

3D structure databases

ProteinModelPortalD0JER2.
SMRD0JER2. Positions 1-306.
ModBaseSearch...
MobiDBSearch...

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaACY57396; ACY57396; YPD4_0487.
GeneID12095816.
KEGGypd:YPD4_0487.
PATRIC36753852. VBIYerPes77623_0627.

Organism-specific databases

CMRSearch...

Phylogenomic databases

HOGENOMHOG000011592.
KOK01921.
OMADTQYRIP.

Enzyme and pathway databases

BioCycYPES637382:GLMX-495-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 nameD0JER2_YERPD
AccessionPrimary (citable) accession number: D0JER2
Entry history
Integrated into UniProtKB/TrEMBL: December 15, 2009
Last sequence update: December 15, 2009
Last modified: February 19, 2014
This is version 30 of the entry and version 1 of the sequence. [Complete history]
Entry statusUnreviewed (UniProtKB/TrEMBL)