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A5VDC2 (DDL_SPHWW) Reviewed, UniProtKB/Swiss-Prot

Last modified February 19, 2014. Version 56. 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:Swit_3943
OrganismSphingomonas wittichii (strain RW1 / DSM 6014 / JCM 10273) [Complete proteome] [HAMAP]
Taxonomic identifier392499 [NCBI]
Taxonomic lineageBacteriaProteobacteriaAlphaproteobacteriaSphingomonadalesSphingomonadaceaeSphingomonas

Protein attributes

Sequence length312 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 – 312312D-alanine--D-alanine ligase HAMAP-Rule MF_00047
PRO_0000341176

Regions

Domain103 – 303201ATP-grasp
Nucleotide binding130 – 18657ATP By similarity

Sites

Metal binding2541Magnesium or manganese 1 By similarity
Metal binding2701Magnesium or manganese 1 By similarity
Metal binding2701Magnesium or manganese 2 By similarity
Metal binding2721Magnesium or manganese 2 By similarity

Sequences

Sequence LengthMass (Da)Tools
A5VDC2 [UniParc].

Last modified July 10, 2007. Version 1.
Checksum: ACE63846418380C7

FASTA31233,653
        10         20         30         40         50         60 
MTHPLHIAVL MGGWSSEREV SLTSGNGVAD ALESLGHKVT RIDMDRDVAL RLAEAKPDVV 

        70         80         90        100        110        120 
FNALHGTPGE DGTVQGMMDL MGLTYTHSGL TTSVIAIDKE LTKQQLVPHG IRMPEGIIVE 

       130        140        150        160        170        180 
SESLHAGDPM PRPYVLKPVN EGSSVGVAII KERDNHGVPI HRDSHGPWQT FATLLAEPFI 

       190        200        210        220        230        240 
RGRELTVAVL GNRALGVTEL VPSSGFYDYE AKYTDGLTTH ICPADVPADI AEAAMRMALD 

       250        260        270        280        290        300 
AHRLLGCKGT SRSDFRWDDE RGEAGLYLLE VNTQPGMTPL SLVPEQARHV GLTYADLVQA 

       310 
IVDEALAGKA AR 

« Hide

References

[1]"Complete sequence of chromosome of Sphingomonas wittichii RW1."
US DOE Joint Genome Institute
Copeland A., Lucas S., Lapidus A., Barry K., Glavina del Rio T., Dalin E., Tice H., Pitluck S., Saunders E., Brettin T., Bruce D., Detter J.C., Han C., Tapia R., Gilna P., Schmutz J., Larimer F., Land M. expand/collapse author list , Hauser L., Kyrpides N., Kim E., Halden R.U., Miller T.R., Salzberg S.L., Eisen J.A., Richardson P.
Submitted (MAY-2007) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: RW1 / DSM 6014 / JCM 10273.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
CP000699 Genomic DNA. Translation: ABQ70288.1.
RefSeqYP_001264426.1. NC_009511.1.

3D structure databases

ProteinModelPortalA5VDC2.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING392499.Swit_3943.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaABQ70288; ABQ70288; Swit_3943.
GeneID5200110.
KEGGswi:Swit_3943.
PATRIC23687165. VBISphWit55028_4513.

Organism-specific databases

CMRSearch...

Phylogenomic databases

eggNOGCOG1181.
HOGENOMHOG000011592.
KOK01921.
OMAKYTEGFA.
OrthoDBEOG6ND0KB.
ProtClustDBPRK01372.

Enzyme and pathway databases

BioCycSWIT392499:GHZK-3990-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_SPHWW
AccessionPrimary (citable) accession number: A5VDC2
Entry history
Integrated into UniProtKB/Swiss-Prot: June 10, 2008
Last sequence update: July 10, 2007
Last modified: February 19, 2014
This is version 56 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