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D3V4L3 (D3V4L3_XENBS) Unreviewed, UniProtKB/TrEMBL

Last modified February 19, 2014. Version 26. Feed History...

Clusters with 100%, 90%, 50% identity | Third-party data text xml rdf/xml gff fasta
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Names and origin

Protein namesRecommended name:
D-alanine--D-alanine ligase HAMAP-Rule MF_00047

EC=6.3.2.4 HAMAP-Rule MF_00047
Alternative name(s):
D-Ala-D-Ala ligase HAMAP-Rule MF_00047
D-alanylalanine synthetase HAMAP-Rule MF_00047
Gene names
Name:ddlB EMBL CBJ82592.1
Synonyms:ddl HAMAP-Rule MF_00047
Ordered Locus Names:XBJ1_3474 EMBL CBJ82592.1
OrganismXenorhabdus bovienii (strain SS-2004) [Complete proteome] [HAMAP] EMBL CBJ82592.1
Taxonomic identifier406818 [NCBI]
Taxonomic lineageBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeXenorhabdus

Protein attributes

Sequence length306 AA.
Sequence statusComplete.
Protein existenceInferred from homology

General annotation (Comments)

Function

Cell wall formation By similarity. HAMAP-Rule MF_00047 SAAS SAAS005905

Catalytic activity

ATP + 2 D-alanine = ADP + phosphate + D-alanyl-D-alanine. HAMAP-Rule MF_00047 SAAS SAAS005905

Cofactor

Binds 2 magnesium or manganese ions per subunit By similarity. HAMAP-Rule MF_00047 SAAS SAAS005905

Pathway

Cell wall biogenesis; peptidoglycan biosynthesis. HAMAP-Rule MF_00047 SAAS SAAS005905

Subcellular location

Cytoplasm By similarity HAMAP-Rule MF_00047 SAAS SAAS005905.

Sequence similarities

Belongs to the D-alanine--D-alanine ligase family. HAMAP-Rule MF_00047

Contains 1 ATP-grasp domain. HAMAP-Rule MF_00047

Contains ATP-grasp domain. SAAS SAAS005905

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Regions

Domain101 – 303203ATP-grasp By similarity HAMAP-Rule MF_00047
Nucleotide binding134 – 18956ATP By similarity HAMAP-Rule MF_00047

Sites

Metal binding2571Magnesium or manganese 1 By similarity HAMAP-Rule MF_00047
Metal binding2701Magnesium or manganese 1 By similarity HAMAP-Rule MF_00047
Metal binding2701Magnesium or manganese 2 By similarity HAMAP-Rule MF_00047
Metal binding2721Magnesium or manganese 2 By similarity HAMAP-Rule MF_00047

Sequences

Sequence LengthMass (Da)Tools
D3V4L3 [UniParc].

Last modified April 20, 2010. Version 1.
Checksum: 8DD66453C95D8B4A

FASTA30633,271
        10         20         30         40         50         60 
MVEKVAVLLG GTSAEREVSL QSGQSVVAGL KEAGINAYSV DTKDFDVTKL KGEGFSKAFI 

        70         80         90        100        110        120 
ALHGRGGEDG TLQGVLEFLQ IPYTGSGVMA SALSMDKLRT KQLWQGAKLP VSPYAAINAQ 

       130        140        150        160        170        180 
KFEQVNDFQL QEYVRELGLP LMVKPNLEGS SVGMTKVNDY SELRGALELA FQHDTDVLVE 

       190        200        210        220        230        240 
KWLLGPEYTV AFLGDEVLPS IRIQAPEVFY DYDAKYLSNE TKYFCPSGLS AEKELELAEI 

       250        260        270        280        290        300 
ASKAYKALGC SGWGRVDIMD DGNGNFYLLE VNTSPGMTSH SLVPMAARQS GLSFSQLVVK 


ILELAD 

« Hide

References

[1]"Complete genome sequence of Xenorhabdus nematophila (strain ATCC 19061 / DSM 3370 / LMG 1036 / NCIB 9965 / AN6)."
Goodrich-Blair H., Barbazuk B., Bode H.B., Darby C., Du Z., Forst S., Gaudriault S., Goldman B.S., Goodner B., Henkhaus J., Latreille P., Medigue C., Miller N., Norton S., Ogier J.C., Rouy Z., Slater S., Suen G.
Submitted (FEB-2010) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: SS-2004.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
FN667741 Genomic DNA. Translation: CBJ82592.1.
RefSeqYP_003469356.1. NC_013892.1.

3D structure databases

ProteinModelPortalD3V4L3.
ModBaseSearch...
MobiDBSearch...

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaCBJ82592; CBJ82592; XBJ1_3474.
GeneID8833097.
KEGGxbo:XBJ1_3474.
PATRIC35301631. VBIXenBov95754_3140.

Organism-specific databases

CMRSearch...

Phylogenomic databases

HOGENOMHOG000011592.
KOK01921.

Enzyme and pathway databases

BioCycXBOV406818:GHLH-3470-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.
PS00844. DALA_DALA_LIGASE_2. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry nameD3V4L3_XENBS
AccessionPrimary (citable) accession number: D3V4L3
Entry history
Integrated into UniProtKB/TrEMBL: April 20, 2010
Last sequence update: April 20, 2010
Last modified: February 19, 2014
This is version 26 of the entry and version 1 of the sequence. [Complete history]
Entry statusUnreviewed (UniProtKB/TrEMBL)