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Q5E006 (DDL_VIBF1) Reviewed, UniProtKB/Swiss-Prot

Last modified May 14, 2014. Version 72. 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:VF_A0570
OrganismVibrio fischeri (strain ATCC 700601 / ES114) [Reference proteome] [HAMAP]
Taxonomic identifier312309 [NCBI]
Taxonomic lineageBacteriaProteobacteriaGammaproteobacteriaVibrionalesVibrionaceaeAliivibrio

Protein attributes

Sequence length330 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 – 330330D-alanine--D-alanine ligase HAMAP-Rule MF_00047
PRO_0000341194

Regions

Domain120 – 326207ATP-grasp
Nucleotide binding150 – 20556ATP By similarity

Sites

Metal binding2801Magnesium or manganese 1 By similarity
Metal binding2931Magnesium or manganese 1 By similarity
Metal binding2931Magnesium or manganese 2 By similarity
Metal binding2951Magnesium or manganese 2 By similarity

Sequences

Sequence LengthMass (Da)Tools
Q5E006 [UniParc].

Last modified March 15, 2005. Version 1.
Checksum: F0CED8F4D9AA04F5

FASTA33036,611
        10         20         30         40         50         60 
MTHILLLCGG GGTEHEVSLV SSKYISQQLS ELDAFEITHL EIKDEGWFHI ESGLKYELRS 

        70         80         90        100        110        120 
DKTLLSGETV SSPVDYVVPC IHGYPGETGD IQSMLDMLSI PYLGCDAESS TNSFNKITSK 

       130        140        150        160        170        180 
LWYDALGIPN TPYLFLTENN EETHQSALAA FKQWGGLFVK AACQGSSVGC YKVTSEAELS 

       190        200        210        220        230        240 
KAINDAFGYS QQVLVEKAVK PRELEVAAYE IDGQLFTTAP GEVTAPDGAF YTYDEKYGSG 

       250        260        270        280        290        300 
SHSTTSLDAQ NLTEEQVKLI DQYSRKVFTQ MKLKDLSRID FFLTDDNEIY LNEVNTFPGM 

       310        320        330 
TPISMFPKLL EHNGDCFKTF LQKAVLNAIK 

« Hide

References

[1]"Complete genome sequence of Vibrio fischeri: a symbiotic bacterium with pathogenic congeners."
Ruby E.G., Urbanowski M., Campbell J., Dunn A., Faini M., Gunsalus R., Lostroh P., Lupp C., McCann J., Millikan D., Schaefer A., Stabb E., Stevens A., Visick K., Whistler C., Greenberg E.P.
Proc. Natl. Acad. Sci. U.S.A. 102:3004-3009(2005) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: ATCC 700601 / ES114.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
CP000021 Genomic DNA. Translation: AAW87640.1.
RefSeqYP_206528.1. NC_006841.2.

3D structure databases

ProteinModelPortalQ5E006.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING312309.VF_A0570.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaAAW87640; AAW87640; VF_A0570.
GeneID3280446.
KEGGvfi:VF_A0570.
PATRIC20117143. VBIVibFis127983_3176.

Phylogenomic databases

eggNOGCOG1181.
HOGENOMHOG000011592.
KOK01921.
OMAGHILANI.
OrthoDBEOG6ND0KB.

Enzyme and pathway databases

BioCycAFIS312309:GIWP-3319-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. 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_VIBF1
AccessionPrimary (citable) accession number: Q5E006
Entry history
Integrated into UniProtKB/Swiss-Prot: June 10, 2008
Last sequence update: March 15, 2005
Last modified: May 14, 2014
This is version 72 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