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C4XRH9 (DDL_DESMR) Reviewed, UniProtKB/Swiss-Prot

Last modified May 14, 2014. Version 38. 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:DMR_20330
OrganismDesulfovibrio magneticus (strain ATCC 700980 / DSM 13731 / RS-1) [Complete proteome] [HAMAP]
Taxonomic identifier573370 [NCBI]
Taxonomic lineageBacteriaProteobacteriaDeltaproteobacteriaDesulfovibrionalesDesulfovibrionaceaeDesulfovibrio

Protein attributes

Sequence length304 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 – 304304D-alanine--D-alanine ligase HAMAP-Rule MF_00047
PRO_1000202198

Regions

Domain100 – 294195ATP-grasp
Nucleotide binding126 – 18055ATP By similarity

Sites

Metal binding2491Magnesium or manganese 1 By similarity
Metal binding2611Magnesium or manganese 1 By similarity
Metal binding2611Magnesium or manganese 2 By similarity
Metal binding2631Magnesium or manganese 2 By similarity

Sequences

Sequence LengthMass (Da)Tools
C4XRH9 [UniParc].

Last modified July 28, 2009. Version 1.
Checksum: 285C53A06A55A506

FASTA30432,255
        10         20         30         40         50         60 
MKILLVAGGW SSERAVSLSG AVQIEKALTS LGHEVVPYDL SHDFPGFVRR AKACDFVFLS 

        70         80         90        100        110        120 
LHGAPGEDGL PQALLDAAGV PYQGSGPAGS FLALNKAASK QLFLEACLPT PRWTFVPRDA 

       130        140        150        160        170        180 
GTSARPDFPL PWFVKPNLGG SSIHMTLVRR AEELPAALEK VFAHGDDALI EEGLSGPELT 

       190        200        210        220        230        240 
CAVLGDEALP PILIRPKAGE FFDYASKYEP DAADEICPAP VEPAVTEELS RLSLAAHRVL 

       250        260        270        280        290        300 
GLCGYSRADF ILAPEGLRLL EVNTLPGMTP TSLLPRAAAT AGLSFADLIA RLIELGLAQQ 


AKRP 

« Hide

References

[1]"Whole genome sequence of Desulfovibrio magneticus strain RS-1 revealed common gene clusters in magnetotactic bacteria."
Nakazawa H., Arakaki A., Narita-Yamada S., Yashiro I., Jinno K., Aoki N., Tsuruyama A., Okamura Y., Tanikawa S., Fujita N., Takeyama H., Matsunaga T.
Genome Res. 19:1801-1808(2009) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: ATCC 700980 / DSM 13731 / RS-1.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AP010904 Genomic DNA. Translation: BAH75524.1.
RefSeqYP_002953410.1. NC_012796.1.

3D structure databases

ProteinModelPortalC4XRH9.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING573370.DMR_20330.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaBAH75524; BAH75524; DMR_20330.
GeneID7983730.
KEGGdma:DMR_20330.
PATRIC21750329. VBIDesMag26496_1935.

Organism-specific databases

CMRSearch...

Phylogenomic databases

eggNOGCOG1181.
HOGENOMHOG000011592.
KOK01921.
OMAGCDARSS.
OrthoDBEOG6ND0KB.

Enzyme and pathway databases

BioCycDMAG573370:GHJL-2055-MONOMER.
UniPathwayUPA00219.

Family and domain databases

Gene3D3.30.1490.20. 1 hit.
3.30.470.20. 1 hit.
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.
PROSITEPS50975. ATP_GRASP. 1 hit.
PS00844. DALA_DALA_LIGASE_2. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry nameDDL_DESMR
AccessionPrimary (citable) accession number: C4XRH9
Entry history
Integrated into UniProtKB/Swiss-Prot: September 22, 2009
Last sequence update: July 28, 2009
Last modified: May 14, 2014
This is version 38 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