4H1N

Crystal Structure of P450 2B4 F297A Mutant in Complex with Anti-platelet Drug Clopidogrel

Structural Biology Knowledgebase: 4H1N SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.99 Å
  • R-Value Free: 0.286
  • R-Value Work: 0.233

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4H1N

Classification: OXIDOREDUCTASE

Total Structure Weight: 57026.21

Macromolecule Entities
Molecule Chains Length Organism Details
Cytochrome P450 2B4 A 479 Oryctolagus cuniculus EC#: 1.14.14.1 IUBMB
Mutation: E21A, ΔF3, ΔF3, ΔF3, ΔS4, ΔS4, ΔS4, ΔL5, ΔL5, ΔL5, ΔL6, ΔL6, ΔL6, ΔL7, ΔL7, ΔL7, ΔL8, ΔL8, ΔL8, ΔL9, ΔL9, ΔL9, ΔA10, ΔA10, ΔA10, ΔF11, ΔF11, ΔF11, ΔL12, ΔL12, ΔL12, ΔA13, ΔA13, ΔA13, ΔG14, ΔG14, ΔG14, ΔL15, ΔL15, ΔL15, ΔL16, ΔL16, ΔL16, ΔL17, ΔL17, ΔL17, ΔL18, ΔL18, ΔL18, ΔL19, ΔL19, ΔL19, ΔF20, ΔF20, ΔF20, ΔR21, ΔR21, ΔR21, G22K, H23K, P24T, K25S, A26S, H27K, R29K, P221S, H226Y, F297A
Gene Name(s): CYP2B4

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
HEM
Query on HEM

A PROTOPORPHYRIN IX CONTAINING FE
HEME (Synonym)
C34 H32 Fe N4 O4
KABFMIBPWCXCRK-RGGAHWMASA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CM5
Query on CM5

A 5-CYCLOHEXYL-1-PENTYL-BETA-D-MALTOSIDE
5-CYCLOHEXYLPENTYL 4-O-ALPHA-D-GLUCOPYRANOSYL- BETA-D-GLUCOPYRANOSIDE; CYMAL-5 (Synonym)
C23 H42 O11
RVTGFZGNOSKUDA-ZNGNCRBCSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CGE
Query on CGE

A Clopidogrel
7-dihydrothieno[3, (Synonym)
C16 H16 Cl N O2 S
GKTWGGQPFAXNFI-HNNXBMFYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.99 Å
  • R-Value Free: 0.286
  • R-Value Work: 0.233
  • Space Group: P 31 2 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 91.39 α = 90.00
b = 91.39 β = 90.00
c = 152.29 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-09-10
  • Released Date: 2013-01-16
  • Deposition author(s): Shah, M.B., Jang, H.H., Stout, C.D., Halpert, J.R.

Revision History

  • 2013-02-20
    Type: Citation | Details: Citation update
  • 2013-01-23
    Type: Citation | Details: Citation update