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PDBsum entry 2yzn

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protein ligands Protein-protein interface(s) links
Ligase PDB id
2yzn
Jmol PyMol
Contents
Protein chains
317 a.a. *
Ligands
ANP ×3
Waters ×81
* Residue conservation analysis
PDB id:
2yzn
Name: Ligase
Title: Crystal structure of d-alanine:d-alanine ligase with amppnp thermus thermophilus hb8.
Structure: D-alanine-d-alanine ligase. Chain: a, b, c. Engineered: yes
Source: Thermus thermophilus. Organism_taxid: 300852. Strain: hb8. Expressed in: escherichia coli. Expression_system_taxid: 562.
Resolution:
2.60Å     R-factor:   0.230     R-free:   0.280
Authors: Y.Kitamuta,S.Yokoyama,S.Kuramitsu,Riken Structural Genomics/proteomics Initiative (Rsgi)
Key ref: Y.Kitamura et al. Crystal structure of d-Alanine:d-Alanine ligase with amppnp from thermus thermophilus hb8. To be published, .
Date:
06-May-07     Release date:   06-Nov-07    
PROCHECK
Go to PROCHECK summary
 Headers
 References

Protein chains
Pfam   ArchSchema ?
Q5SHZ3  (DDL_THET8) -  D-alanine--D-alanine ligase
Seq:
Struc:
319 a.a.
317 a.a.
Key:    PfamA domain  Secondary structure  CATH domain

 Enzyme reactions 
   Enzyme class: E.C.6.3.2.4  - D-alanine--D-alanine ligase.
[IntEnz]   [ExPASy]   [KEGG]   [BRENDA]

      Pathway:
Peptidoglycan Biosynthesis (Part 1)
      Reaction: ATP + 2 D-alanine = ADP + phosphate + D-alanyl-D-alanine
ATP
+ 2 × D-alanine
=
ADP
Bound ligand (Het Group name = ANP)
matches with 81.25% similarity
+ phosphate
+ D-alanyl-D-alanine
Molecule diagrams generated from .mol files obtained from the KEGG ftp site
 Gene Ontology (GO) functional annotation 
  GO annot!
  Cellular component     cytoplasm   1 term 
  Biological process     cell wall organization   3 terms 
  Biochemical function     nucleotide binding     5 terms  

 

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