Structure of MOEN5-SSO7D fusion protein in complex with ligand 2

Experimental Data Snapshot

  • Resolution: 2.23 Å
  • R-Value Free: 0.225 
  • R-Value Work: 0.172 
  • R-Value Observed: 0.174 

Starting Model: experimental
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Complex structures of MoeN5 with substrate analogues suggest sequential catalytic mechanism.

Zhang, L.L.Ko, T.P.Malwal, S.R.Liu, W.D.Zhou, S.Y.Yu, X.J.Oldfield, E.Guo, R.T.Chen, C.C.

(2019) Biochem Biophys Res Commun 511: 800-805

  • DOI: https://doi.org/10.1016/j.bbrc.2019.02.131
  • Primary Citation of Related Structures:  
    5GWV, 5GWW, 6J8V, 6J8W

  • PubMed Abstract: 

    The antibiotic moenomycin A is a phosphoglycerate derivative with a C 25 -moenocinyl chain and a branched oligosaccharide. Formation of the C 25 -chain is catalyzed by the enzyme MoeN5 with geranyl pyrophosphate (GPP) and the sugar-linked 2-Z,E-farnesyl-3-phosphoglycerate (FPG) as its substrates. Previous complex crystal structures with GPP and long-chain alkyl glycosides suggested that GPP binds to the S1 site in a similar way as in most other α-helical prenyltransferases (PTs), and FPG is likely to assume a bent conformation in the S2 site. However, two FPG derivatives synthesized in the current study were found in the S1 site rather than S2 in their complex crystal structures with MoeN5. Apparently S1 is the preferred site for prenyl-containing ligand, and S2 binding may proceed only after S1 is occupied. Thus, like most trans-type PTs, MoeN5 may employ a sequential ionization-condensation-elimination mechanism that involves a carbocation intermediate.

  • Organizational Affiliation

    University of Chinese Academy of Sciences, Beijing, 100049, China; Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin, 300308, China.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
MoeN5,DNA-binding protein 7d
A, B, C, D
343Streptomyces viridosporusSaccharolobus solfataricus P2
This entity is chimeric
Mutation(s): 0 
Gene Names: moeN5sso7dsso7d-1SSO10610
Find proteins for A0A010 (Streptomyces viridosporus)
Explore A0A010 
Go to UniProtKB:  A0A010
Find proteins for P39476 (Saccharolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2))
Explore P39476 
Go to UniProtKB:  P39476
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupsA0A010P39476
Sequence Annotations
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
Query on FAR

Download Ideal Coordinates CCD File 
C15 H26
Experimental Data & Validation

Experimental Data

  • Resolution: 2.23 Å
  • R-Value Free: 0.225 
  • R-Value Work: 0.172 
  • R-Value Observed: 0.174 
  • Space Group: C 2 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 137.856α = 90
b = 217.336β = 90
c = 104.159γ = 90
Software Package:
Software NamePurpose
HKL-2000data scaling
PDB_EXTRACTdata extraction
HKL-2000data reduction

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2019-04-17
    Type: Initial release
  • Version 1.1: 2023-11-22
    Changes: Data collection, Database references, Refinement description