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Q1LIM8 (DDL_RALME) Reviewed, UniProtKB/Swiss-Prot

Last modified May 14, 2014. Version 65. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
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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:Rmet_3126
OrganismRalstonia metallidurans (strain CH34 / ATCC 43123 / DSM 2839) [Complete proteome] [HAMAP]
Taxonomic identifier266264 [NCBI]
Taxonomic lineageBacteriaProteobacteriaBetaproteobacteriaBurkholderialesBurkholderiaceaeCupriavidus

Protein attributes

Sequence length327 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 – 327327D-alanine--D-alanine ligase HAMAP-Rule MF_00047
PRO_0000341160

Regions

Domain113 – 312200ATP-grasp
Nucleotide binding139 – 19456ATP By similarity

Sites

Metal binding2661Magnesium or manganese 1 By similarity
Metal binding2791Magnesium or manganese 1 By similarity
Metal binding2791Magnesium or manganese 2 By similarity
Metal binding2811Magnesium or manganese 2 By similarity

Sequences

Sequence LengthMass (Da)Tools
Q1LIM8 [UniParc].

Last modified May 30, 2006. Version 1.
Checksum: E9968DC61E896386

FASTA32734,968
        10         20         30         40         50         60 
MSFVAHPNID PKSLGKVGVL LGGKSAEREI SLLSGNGVLA ALKSRGVDAH PFDPGLQPIS 

        70         80         90        100        110        120 
ELAAAGFDRV FIALHGRYGE DGTMQGLLEQ LGIPYTGSGV LASALAMDKQ ATKRLWMTHG 

       130        140        150        160        170        180 
LATPRFAMLY ANTDFDAVVA DLGLPLIVKP AREGSSIGLT KVIAADQMRA AFEKAAGLDA 

       190        200        210        220        230        240 
DVIAETFIDG AELTCPIVGE GPTAEALPVI KIVAPESNYD YQNKYFTDDT QYLCPSTLPD 

       250        260        270        280        290        300 
ALEREVRALA VEAFRVLGCR GWARADVMLT RDGKPYLLEM NTSPGMTGHS LVPMAARANG 

       310        320 
ISYEDFVMQV LAAATLDLHP NEHWKPE 

« Hide

References

[1]"Complete sequence of the chromosome of Ralstonia metallidurans CH34."
US DOE Joint Genome Institute
Copeland A., Lucas S., Lapidus A., Barry K., Detter J.C., Glavina del Rio T., Hammon N., Israni S., Dalin E., Tice H., Martinez M., Goltsman E., Pitluck S., Schmutz J., Larimer F., Land M., Hauser L., Kyrpides N. expand/collapse author list , Kim E., Mergeay M., Benotmane M.A., Vallaeys T., Michaux A., Monchy S., Dunn J., McCorkle S., Taghavi S., van der Lelie D., Richardson P.
Submitted (APR-2006) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: CH34 / ATCC 43123 / DSM 2839.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
CP000352 Genomic DNA. Translation: ABF09998.1.
RefSeqYP_585267.1. NC_007973.1.

3D structure databases

ProteinModelPortalQ1LIM8.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING266264.Rmet_3126.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaABF09998; ABF09998; Rmet_3126.
GeneID4039955.
KEGGrme:Rmet_3126.
PATRIC20290887. VBIRalMet4734_3518.

Organism-specific databases

CMRSearch...

Phylogenomic databases

eggNOGCOG1181.
HOGENOMHOG000011592.
KOK01921.
OMAKLAFQYD.
OrthoDBEOG6ND0KB.

Enzyme and pathway databases

BioCycCMET266264:GJ5G-3335-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_RALME
AccessionPrimary (citable) accession number: Q1LIM8
Entry history
Integrated into UniProtKB/Swiss-Prot: June 10, 2008
Last sequence update: May 30, 2006
Last modified: May 14, 2014
This is version 65 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