Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA,PQS (software)

Macromolecule Content

• Total Structure Weight: 49.60 kDa 
• Atom Count: 3733 
• Modelled Residue Count: 424 
• Deposited Residue Count: 435 
• Unique protein chains: 1

1M7Y

Crystal structure of apple ACC synthase in complex with L-aminoethoxyvinylglycine

• PDB DOI: 10.2210/pdb1M7Y/pdb

• Classification: LYASE
• Organism(s): Malus domestica
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2002-07-23 Released: 2002-12-23 
• Deposition Author(s): Capitani, G., McCarthy, D., Gut, H., Gruetter, M.G., Kirsch, J.F.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 0.219 
• R-Value Work: 0.205 

Literature

Apple 1-Aminocyclopropane-1-carboxylate Synthase in Complex with the Inhibitor L-Aminoethoxyvinylglycine

Capitani, G., McCarthy, D.L., Gut, H., Gruetter, M.G., Kirsch, J.F.

(2002) J Biol Chem 277: 49735-49742

• PubMed: 12228256 
• DOI: 10.1074/jbc.M208427200
• Primary Citation of Related Structures:  
  1M7Y


• PubMed Abstract: 
  

The 1.6-A crystal structure of the covalent ketimine complex of apple 1-aminocyclopropane-1-carboxylate (ACC) synthase with the potent inhibitor l-aminoethoxyvinylglycine (AVG) is described. ACC synthase catalyzes the committed step in the biosynthesis of ethylene, a plant hormone that is responsible for the initiation of fruit ripening and for regulating many other developmental processes. AVG is widely used in plant physiology studies to inhibit the activity of ACC synthase. The structural assignment is supported by the fact that the complex absorbs maximally at 341 nm. These results are not in accord with the recently reported crystal structure of the tomato ACC synthase AVG complex, which claims that the inhibitor only associates noncovalently. The rate constant for the association of AVG with apple ACC synthase was determined by stopped-flow spectrophotometry (2.1 x 10(5) m(-1) s(-1)) and by the rate of loss of enzyme activity (1.1 x 10(5) m(-1) s(-1)). The dissociation rate constant determined by activity recovery is 2.4 x 10(-6) s(-1). Thus, the calculated K(d) value is 10-20 pm.

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Organizational Affiliation: 

Biochemisches Institut der Universität Zürich, Winterthurerstrasse 190, CH-8057 Zürich, Switzerland. [e-mail]

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
1-aminocyclopropane-1-carboxylate synthase	A	435	Malus domestica	Mutation(s): 0  Gene Names: ACS-1 EC: 4.4.1.14 (PDB Primary Data), 1.4 (UniProt)
UniProt
Find proteins for P37821 (Malus domestica) Explore P37821  Go to UniProtKB:  P37821

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PPG	B [auth A]	(2E,3E)-4-(2-aminoethoxy)-2-[({3-hydroxy-2-methyl-5-[(phosphonooxy)methyl]pyridin-4-yl}methyl)imino]but-3-enoic acid C14 H20 N3 O8 P OBCQKAZQAHYUOZ-CALQLVRRSA-N
MRD	C [auth A]	(4R)-2-METHYLPENTANE-2,4-DIOL C6 H14 O2 SVTBMSDMJJWYQN-RXMQYKEDSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
PPG	PDBBind:  1M7Y	Kd: 0.01 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 0.219 
• R-Value Work: 0.205 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 103.31	α = 90
b = 61.14	β = 123.36
c = 77.14	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
AMoRE	phasing
CNS	refinement

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2002-07-23 
• Released Date: 2002-12-23 
Deposition Author(s): Capitani, G., McCarthy, D., Gut, H., Gruetter, M.G., Kirsch, J.F.

Revision History  

• Version 1.0: 2002-12-23
  Type: Initial release
  
• Version 1.1: 2008-04-28
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Derived calculations, Version format compliance
• Version 1.3: 2011-12-28
  Changes: Non-polymer description