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B3EDF4 (DDL_CHLL2) Reviewed, UniProtKB/Swiss-Prot

Last modified February 19, 2014. Version 41. 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:Clim_1529
OrganismChlorobium limicola (strain DSM 245 / NBRC 103803) [Complete proteome] [HAMAP]
Taxonomic identifier290315 [NCBI]
Taxonomic lineageBacteriaChlorobiChlorobiaChlorobialesChlorobiaceaeChlorobium/Pelodictyon groupChlorobium

Protein attributes

Sequence length363 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 – 363363D-alanine--D-alanine ligase HAMAP-Rule MF_00047
PRO_1000091169

Regions

Domain146 – 352207ATP-grasp
Nucleotide binding179 – 23456ATP By similarity

Sites

Metal binding3051Magnesium or manganese 1 By similarity
Metal binding3191Magnesium or manganese 1 By similarity
Metal binding3191Magnesium or manganese 2 By similarity
Metal binding3211Magnesium or manganese 2 By similarity

Sequences

Sequence LengthMass (Da)Tools
B3EDF4 [UniParc].

Last modified July 22, 2008. Version 1.
Checksum: 02D032C73D23E0E3

FASTA36338,980
        10         20         30         40         50         60 
MSKTTIALLF GGKSTEHEIS IISARSISGA IDRERYRVVP VYITHEGAWF SGDSAAEILS 

        70         80         90        100        110        120 
LDLSSIMRKS SVGNTETLLR EMIRNSAEKP FDFNFRAAGI DVVFIALHGS YGEDGRVQGL 

       130        140        150        160        170        180 
LDTMGIPYTG CGVSASAIAM DKALTKLCAA DAGVATAPSI TLDADSYLAD PEPVHELVDS 

       190        200        210        220        230        240 
TFGYPLFVKP ASLGSSVGIS KVHLPAALPE ALKVACSYDR KILVEAAVSG KEIEVAVLGN 

       250        260        270        280        290        300 
DRPVASVPGE VEPGSDFYDF QDKYIHNTAK TFIPARLPDK LLDSVRCSAI TVYKALGCRG 

       310        320        330        340        350        360 
MSRVDFFVNE ENGSIVLNEI NTIPGFTDIS MYPKLFEASG IPFTALIDKL LHYAQEKPEA 


AGR 

« Hide

References

[1]"Complete sequence of Chlorobium limicola DSM 245."
US DOE Joint Genome Institute
Lucas S., Copeland A., Lapidus A., Glavina del Rio T., Dalin E., Tice H., Bruce D., Goodwin L., Pitluck S., Schmutz J., Larimer F., Land M., Hauser L., Kyrpides N., Ovchinnikova G., Zhao F., Li T., Liu Z. expand/collapse author list , Overmann J., Bryant D.A., Richardson P.
Submitted (MAY-2008) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: DSM 245 / NBRC 103803.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
CP001097 Genomic DNA. Translation: ACD90579.1.
RefSeqYP_001943558.1. NC_010803.1.

3D structure databases

ProteinModelPortalB3EDF4.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING290315.Clim_1529.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaACD90579; ACD90579; Clim_1529.
GeneID6354634.
KEGGcli:Clim_1529.
PATRIC21375199. VBIChlLim118737_1630.

Organism-specific databases

CMRSearch...

Phylogenomic databases

eggNOGCOG1181.
HOGENOMHOG000011593.
KOK01921.
OMAMDKIAMK.
OrthoDBEOG64BQ73.
ProtClustDBPRK01966.

Enzyme and pathway databases

BioCycCLIM290315:GHUH-1567-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 nameDDL_CHLL2
AccessionPrimary (citable) accession number: B3EDF4
Entry history
Integrated into UniProtKB/Swiss-Prot: March 24, 2009
Last sequence update: July 22, 2008
Last modified: February 19, 2014
This is version 41 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