6CSD

V308E mutant of cytochrome P450 2D6 complexed with prinomastat


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.391 Å
  • R-Value Free: 0.236 
  • R-Value Work: 0.198 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Characteristic conformational changes on the distal and proximal surfaces of cytochrome P450 2D6 in response to substrate binding

Yang, Y.T.Fujita, F.Wang, P.F.Im, S.C.Pearl, N.M.Meagher, J.Stuckey, J.Waskell, L.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Cytochrome P450 2D6
A, B
479Homo sapiensMutation(s): 1 
Gene Names: CYP2D6 (CYP2DL1)
EC: 1.14.14.1
Find proteins for P10635 (Homo sapiens)
Go to Gene View: CYP2D6
Go to UniProtKB:  P10635
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download SDF File 
Download CCD File 
A, B
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
PN0
Query on PN0

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Download CCD File 
A, B
Prinomastat
(3S)-N-hydroxy-2,2-dimethyl-4-{[4-(pyridin-4-yloxy)phenyl]sulfonyl}thiomorpholine-3-carboxamide
C18 H21 N3 O5 S2
YKPYIPVDTNNYCN-INIZCTEOSA-N
 Ligand Interaction
HEM
Query on HEM

Download SDF File 
Download CCD File 
A, B
PROTOPORPHYRIN IX CONTAINING FE
HEME
C34 H32 Fe N4 O4
KABFMIBPWCXCRK-RGGAHWMASA-L
 Ligand Interaction
CPS
Query on CPS

Download SDF File 
Download CCD File 
A, B
3-[(3-CHOLAMIDOPROPYL)DIMETHYLAMMONIO]-1-PROPANESULFONATE
CHAPS
C32 H58 N2 O7 S
UMCMPZBLKLEWAF-BCTGSCMUSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.391 Å
  • R-Value Free: 0.236 
  • R-Value Work: 0.198 
  • Space Group: P 21 21 2
Unit Cell:
Length (Å)Angle (°)
a = 57.472α = 90.00
b = 126.527β = 90.00
c = 192.258γ = 90.00
Software Package:
Software NamePurpose
PHASERphasing
PHENIXrefinement
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2019-03-27
    Type: Initial release