6KBH | pdb_00006kbh

Crystal structure of an intact type IV self-sufficient cytochrome P450 monooxygenase

• PDB DOI: https://doi.org/10.2210/pdb6KBH/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Rhodococcus sp. ECU0066
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2019-06-25 Released: 2020-07-01 
• Deposition Author(s): Gong, R., Wu, L.J., Zhang, Y., Liu, Z., Dou, S., Zhang, R.G., Xu, J.H., Tang, C., Zhou, J.H.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free: 
  0.277 (Depositor), 0.281 (DCC) 
• R-Value Work: 
  0.236 (Depositor), 0.239 (DCC) 
• R-Value Observed: 
  0.238 (Depositor) 

Literature

Crystal structure of an intact type IV self-sufficient cytochrome P450 monooxygenase

Gong, R., Wu, L.J., Zhang, Y., Liu, Z., Dou, S., Zhang, R.G., Xu, J.H., Tang, C., Zhou, J.H.

To be published.

Biological Assembly 1  

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

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

Macromolecule Content 

• Total Structure Weight: 88.55 kDa 
• Atom Count: 6,059 
• Modeled Residue Count: 765 
• Deposited Residue Count: 786 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Cytochrome P450 monooxygenase	A	786	Rhodococcus sp. ECU0066	Mutation(s): 0
UniProt
Find proteins for C7SFP5 (Rhodococcus sp. ECU0066) Explore C7SFP5  Go to UniProtKB:  C7SFP5

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
HEM (Subject of Investigation/LOI)	C [auth A]	PROTOPORPHYRIN IX CONTAINING FE C34 H32 Fe N4 O4 KABFMIBPWCXCRK-RGGAHWMASA-L
FMN	B [auth A]	FLAVIN MONONUCLEOTIDE C17 H21 N4 O9 P FVTCRASFADXXNN-SCRDCRAPSA-N
FES (Subject of Investigation/LOI)	D [auth A]	FE2/S2 (INORGANIC) CLUSTER Fe2 S2 NIXDOXVAJZFRNF-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free:  0.277 (Depositor), 0.281 (DCC) 
• R-Value Work:  0.236 (Depositor), 0.239 (DCC) 
• R-Value Observed: 0.238 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 131.762	α = 90
b = 55.484	β = 98.12
c = 135.96	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XSCALE	data scaling
PDB_EXTRACT	data extraction
XDS	data reduction
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2020-07-01 
Deposition Author(s): Gong, R., Wu, L.J., Zhang, Y., Liu, Z., Dou, S., Zhang, R.G., Xu, J.H., Tang, C., Zhou, J.H.

Revision History  

• Version 1.0: 2020-07-01
  Type: Initial release
  
• Version 1.1: 2024-03-27
  Changes: Data collection, Database references