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B5EBQ4 (DDL_GEOBB) Reviewed, UniProtKB/Swiss-Prot

Last modified February 19, 2014. Version 42. 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:Gbem_0494
OrganismGeobacter bemidjiensis (strain Bem / ATCC BAA-1014 / DSM 16622) [Complete proteome] [HAMAP]
Taxonomic identifier404380 [NCBI]
Taxonomic lineageBacteriaProteobacteriaDeltaproteobacteriaDesulfuromonadalesGeobacteraceaeGeobacter

Protein attributes

Sequence length305 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 – 305305D-alanine--D-alanine ligase HAMAP-Rule MF_00047
PRO_1000091183

Regions

Domain107 – 299193ATP-grasp
Nucleotide binding134 – 18552ATP By similarity

Sites

Metal binding2531Magnesium or manganese 1 By similarity
Metal binding2661Magnesium or manganese 1 By similarity
Metal binding2661Magnesium or manganese 2 By similarity
Metal binding2681Magnesium or manganese 2 By similarity

Sequences

Sequence LengthMass (Da)Tools
B5EBQ4 [UniParc].

Last modified October 14, 2008. Version 1.
Checksum: ADF7975E890CCF3C

FASTA30532,505
        10         20         30         40         50         60 
MTVEELKKKK IAVLMGGLSA EREVSLNSGK AVLASLVKQG FRAVGIDVGR DLPQRLAEEQ 

        70         80         90        100        110        120 
VELAFIALHG RFGEDGSVQG LLELMGIPYT GSGVLASALA IDKIASKVIF ASAGLKLAPY 

       130        140        150        160        170        180 
QVLRRGEELK LANPLPVVVK PSREGSSVGV GIVRDPSRMQ AALDEAFRYD SEILIEGFID 

       190        200        210        220        230        240 
GREVQVGILN GKALGAIEII PKGEFYDYEA KYTDGGAQHI LPARLPEAVY AEVLRQGEKA 

       250        260        270        280        290        300 
HAALGCDCYS RVDFLVTETG DCFLLEVNTL PGMTDLSLLP EIAGGAGIAF GELVLRILQA 


ASLKI 

« Hide

References

[1]"Complete sequence of Geobacter bemidjiensis BEM."
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., Kiss H., Brettin T., Detter J.C., Han C., Kuske C.R., Schmutz J., Larimer F., Land M., Hauser L. expand/collapse author list , Kyrpides N., Lykidis A., Lovley D., Richardson P.
Submitted (JUL-2008) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: Bem / ATCC BAA-1014 / DSM 16622.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
CP001124 Genomic DNA. Translation: ACH37523.1.
RefSeqYP_002137319.1. NC_011146.1.

3D structure databases

ProteinModelPortalB5EBQ4.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING404380.Gbem_0494.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaACH37523; ACH37523; Gbem_0494.
GeneID6783323.
KEGGgbm:Gbem_0494.
PATRIC21984645. VBIGeoBem56306_0485.

Organism-specific databases

CMRSearch...

Phylogenomic databases

eggNOGCOG1181.
HOGENOMHOG000011592.
KOK01921.
OMADTQYRIP.
OrthoDBEOG6ND0KB.
ProtClustDBCLSK829085.

Enzyme and pathway databases

BioCycGBEM404380:GHFR-498-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.
[Graphical view]
ProtoNetSearch...

Entry information

Entry nameDDL_GEOBB
AccessionPrimary (citable) accession number: B5EBQ4
Entry history
Integrated into UniProtKB/Swiss-Prot: March 24, 2009
Last sequence update: October 14, 2008
Last modified: February 19, 2014
This is version 42 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