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B2RIT4 (DDL_PORG3) Reviewed, UniProtKB/Swiss-Prot

Last modified February 19, 2014. Version 44. 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:PGN_0760
OrganismPorphyromonas gingivalis (strain ATCC 33277 / DSM 20709 / JCM 12257) [Complete proteome] [HAMAP]
Taxonomic identifier431947 [NCBI]
Taxonomic lineageBacteriaBacteroidetesBacteroidiaBacteroidalesPorphyromonadaceaePorphyromonas

Protein attributes

Sequence length330 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 – 330330D-alanine--D-alanine ligase HAMAP-Rule MF_00047
PRO_1000091202

Regions

Domain122 – 323202ATP-grasp
Nucleotide binding151 – 20656ATP By similarity

Sites

Metal binding2771Magnesium or manganese 1 By similarity
Metal binding2901Magnesium or manganese 1 By similarity
Metal binding2901Magnesium or manganese 2 By similarity
Metal binding2921Magnesium or manganese 2 By similarity

Sequences

Sequence LengthMass (Da)Tools
B2RIT4 [UniParc].

Last modified July 1, 2008. Version 1.
Checksum: 36097B6499FDB9EE

FASTA33036,369
        10         20         30         40         50         60 
MKKPIVAVIA GGYSGEHSVS LKSAAGILSW LGSEPFSAFL VLIERDRWSV RVSEQREVPL 

        70         80         90        100        110        120 
DKNDFSFDLD DERIRFDYAY ITIHGTPGEN GLLQGYLDMI GIPYNTGDTL VESLTFNKYV 

       130        140        150        160        170        180 
CNRFLSGFGI RIADSMRLTG RDTQPDVADL TARMGLPLFV KPNVGGSSIA TTKVVEAAQL 

       190        200        210        220        230        240 
LPAIGQAFSE GEEVMIERLI CGTEVTCGAF LRKKEVVALP VTEVVAHNEF FDFDAKYNGA 

       250        260        270        280        290        300 
VEEITPARIS DEATRLIQTM TARIYELLNA RGIIRVDYII EADGIPTLLE VNTTPGMTPT 

       310        320        330 
SFIPQQVRAA EMDMKEVLCT IIRDGLNETQ 

« Hide

References

[1]"Determination of the genome sequence of Porphyromonas gingivalis strain ATCC 33277 and genomic comparison with strain W83 revealed extensive genome rearrangements in P. gingivalis."
Naito M., Hirakawa H., Yamashita A., Ohara N., Shoji M., Yukitake H., Nakayama K., Toh H., Yoshimura F., Kuhara S., Hattori M., Hayashi T., Nakayama K.
DNA Res. 15:215-225(2008) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: ATCC 33277 / DSM 20709 / JCM 12257.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AP009380 Genomic DNA. Translation: BAG33279.1.
RefSeqYP_001928876.1. NC_010729.1.

3D structure databases

ProteinModelPortalB2RIT4.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING431947.PGN_0760.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaBAG33279; BAG33279; PGN_0760.
GeneID6329405.
KEGGpgn:PGN_0760.
PATRIC22974460. VBIPorGin26334_0750.

Organism-specific databases

CMRSearch...

Phylogenomic databases

eggNOGCOG1181.
HOGENOMHOG000011592.
KOK01921.
OMADTQYRIP.
OrthoDBEOG6ND0KB.
ProtClustDBPRK01966.

Enzyme and pathway databases

BioCycPGIN431947:GC9J-784-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.
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_PORG3
AccessionPrimary (citable) accession number: B2RIT4
Entry history
Integrated into UniProtKB/Swiss-Prot: March 24, 2009
Last sequence update: July 1, 2008
Last modified: February 19, 2014
This is version 44 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