7YAV

Crystal structure of Diels-Alderase MaDA1

• PDB DOI: https://doi.org/10.2210/pdb7YAV/pdb

• Classification: PLANT PROTEIN
• Organism(s): Morus alba
• Expression System: Trichoplusia ni
• Mutation(s): No 


• Deposited: 2022-06-28 Released: 2024-01-24 
• Deposition Author(s): Lei, X.G., Chen, R.C., Du, X.X., Yang, J., Fan, J.P., Guo, N.X., Ding, Q.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 0.226 
• R-Value Work: 0.195 
• R-Value Observed: 0.196 

Literature

Crystal structure of Diels-Alderase MaDA1

Lei, X.G., Ding, Q., Guo, N.X., Yang, J., Fan, J.P.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors.

Macromolecule Content

• Total Structure Weight: 124.54 kDa 
• Atom Count: 8,724 
• Modelled Residue Count: 1,001 
• Deposited Residue Count: 1,078 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
MaDA1	A [auth B], B [auth A]	539	Morus alba	Mutation(s): 0

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
FAD	C [auth B], E [auth A]	FLAVIN-ADENINE DINUCLEOTIDE C27 H33 N9 O15 P2 VWWQXMAJTJZDQX-UYBVJOGSSA-N
NAG	D [auth B], F [auth A], G [auth A]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 0.226 
• R-Value Work: 0.195 
• R-Value Observed: 0.196 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 82.783	α = 90
b = 104.521	β = 90
c = 141.657	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHASER	phasing
Coot	model building

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-01-24 
Deposition Author(s): Lei, X.G., Chen, R.C., Du, X.X., Yang, J., Fan, J.P., Guo, N.X., Ding, Q.

---

Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	22193073
National Natural Science Foundation of China (NSFC)	China	91853202

Revision History  

• Version 1.0: 2024-01-24
  Type: Initial release