8DL4 | pdb_00008dl4

S. CEREVISIAE CYP51 COMPLEXED WITH Courmarin-containing INHIBITOR

• PDB DOI: https://doi.org/10.2210/pdb8DL4/pdb

• Classification: OXIDOREDUCTASE/OXIDOREDUCTASE INHBITOR
• Organism(s): Saccharomyces cerevisiae YJM789
• Expression System: Saccharomyces cerevisiae
• Mutation(s): No 
• Membrane Protein: Yes  PDBTM


• Deposited: 2022-07-06 Released: 2022-08-17 
• Deposition Author(s): Ruma, Y.N., Keniya, M.V., Tyndall, J.D., Monk, B.C.
• Funding Organization(s): Health Research Council (HRC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.91 Å
• R-Value Free: 
  0.210 (Depositor), 0.211 (DCC) 
• R-Value Work: 
  0.191 (Depositor), 0.191 (DCC) 
• R-Value Observed: 
  0.192 (Depositor) 

Starting Model: experimental

Literature

S. CEREVISIAE CYP51 COMPLEXED WITH Courmarin-containing INHIBITOR

Benhamou, R., Keniya, M.V., Ruma, Y.N., Fridman, M., Tyndall, J.D., Monk, B.C.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 63.42 kDa 
• Atom Count: 4,572 
• Modeled Residue Count: 525 
• Deposited Residue Count: 539 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Lanosterol 14-alpha demethylase	A	539	Saccharomyces cerevisiae YJM789	Mutation(s): 0  Gene Names: ERG11, SCY_2394 EC: 1.14.14.154 Membrane Entity: Yes
UniProt
Find proteins for P10614 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P10614  Go to UniProtKB:  P10614

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
HEM	B [auth A]	PROTOPORPHYRIN IX CONTAINING FE C34 H32 Fe N4 O4 KABFMIBPWCXCRK-RGGAHWMASA-L
SKX (Subject of Investigation/LOI)	C [auth A]	7-(diethylamino)-N-[(2S)-2-(2,4-difluorophenyl)-2-hydroxy-3-(1H-1,2,4-triazol-1-yl)propyl]-2-oxo-2H-1-benzopyran-3-carboxamide C25 H25 F2 N5 O4 QYBYHULZZSKXIJ-VWLOTQADSA-N
1PE	D [auth A]	PENTAETHYLENE GLYCOL C10 H22 O6 JLFNLZLINWHATN-UHFFFAOYSA-N
BGC	E [auth A]	beta-D-glucopyranose C6 H12 O6 WQZGKKKJIJFFOK-VFUOTHLCSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.91 Å
• R-Value Free:  0.210 (Depositor), 0.211 (DCC) 
• R-Value Work:  0.191 (Depositor), 0.191 (DCC) 
• R-Value Observed: 0.192 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 76.392	α = 90
b = 64.379	β = 98.3
c = 81.003	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2022-08-17 
Deposition Author(s): Ruma, Y.N., Keniya, M.V., Tyndall, J.D., Monk, B.C.

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Funding Organization	Location	Grant Number
Health Research Council (HRC)	New Zealand	19/397

Revision History  

• Version 1.0: 2022-08-17
  Type: Initial release
  
• Version 1.1: 2023-10-18
  Changes: Data collection, Refinement description