1E1Y

Flavopiridol inhibits glycogen phosphorylase by binding at the inhibitor site

• PDB DOI: https://doi.org/10.2210/pdb1E1Y/pdb

• Classification: TRANSFERASE
• Organism(s): Oryctolagus cuniculus
• Mutation(s): No 


• Deposited: 2000-05-11 Released: 2000-05-17 
• Deposition Author(s): Oikonomakos, N.G., Zographos, S.E., Skamnaki, V.T., Tsitsanou, K.E., Johnson, L.N.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.23 Å
• R-Value Free: 0.252 
• R-Value Work: 0.195 
• R-Value Observed: 0.195 

Biological Assembly 1  

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

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

Macromolecule Content

• Total Structure Weight: 98.2 kDa 
• Atom Count: 7,320 
• Modelled Residue Count: 813 
• Deposited Residue Count: 842 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
GLYCOGEN PHOSPHORYLASE, MUSCLE FORM	A	842	Oryctolagus cuniculus	Mutation(s): 0  EC: 2.4.1.1
UniProt
Find proteins for P00489 (Oryctolagus cuniculus) Explore P00489  Go to UniProtKB:  P00489

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CPB	B [auth A]	2-(2-CHLORO-PHENYL)-5,7-DIHYDROXY-8-(3-HYDROXY-1-METHYL-PIPERIDIN-4-YL)-4H-BENZOPYRAN-4-ONE C21 H20 Cl N O5 BIIVYFLTOXDAOV-YVEFUNNKSA-N
PLP	E [auth A]	PYRIDOXAL-5'-PHOSPHATE C8 H10 N O6 P NGVDGCNFYWLIFO-UHFFFAOYSA-N
GLC	D [auth A]	alpha-D-glucopyranose C6 H12 O6 WQZGKKKJIJFFOK-DVKNGEFBSA-N
PO3	C [auth A]	PHOSPHITE ION O3 P AQSJGOWTSHOLKH-UHFFFAOYSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
CPB	BindingDB:  1E1Y	IC50: min: 1000, max: 1200 (nM) from 2 assay(s)
	Binding MOAD:  1E1Y	IC50: 2500 (nM) from 1 assay(s)
	PDBBind:  1E1Y	IC50: 2500 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.23 Å
• R-Value Free: 0.252 
• R-Value Work: 0.195 
• R-Value Observed: 0.195 
• Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 126.759	α = 90
b = 126.759	β = 90
c = 116.018	γ = 90

Software Package:

Software Name	Purpose
X-PLOR	refinement
DENZO	data reduction
SCALEPACK	data scaling
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2000-05-17 
Deposition Author(s): Oikonomakos, N.G., Zographos, S.E., Skamnaki, V.T., Tsitsanou, K.E., Johnson, L.N.

Revision History  

• Version 1.0: 2000-05-17
  Type: Initial release
  
• Version 1.1: 2011-08-31
  Changes: Data collection, Database references, Derived calculations, Non-polymer description, Other, Source and taxonomy, Structure summary, Version format compliance
• Version 1.2: 2019-05-22
  Changes: Data collection, Derived calculations, Other, Refinement description
• Version 1.3: 2019-07-24
  Changes: Data collection
• Version 1.4: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Data collection, Derived calculations, Structure summary
• Version 1.5: 2023-12-06
  Changes: Data collection, Database references, Refinement description, Structure summary