8Z9S | pdb_00008z9s

Substrate-free structure of CYP105AW5 from deep-sea Streptomyces aculeolatus

• PDB DOI: https://doi.org/10.2210/pdb8Z9S/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Streptomyces aculeolatus
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2024-04-23 Released: 2025-04-30 
• Deposition Author(s): Gao, Q., Yang, J., Xu, L.H.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.69 Å
• R-Value Free: 
  0.201 (Depositor), 0.204 (DCC) 
• R-Value Work: 
  0.167 (Depositor), 0.175 (DCC) 
• R-Value Observed: 
  0.168 (Depositor) 

Starting Model: in silico

Literature

Substrate-free structure of CYP105AW5 from deep-sea Streptomyces aculeolatus

Gao, Q., Yang, J., Xu, L.H.

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: 46.51 kDa 
• Atom Count: 3,771 
• Modeled Residue Count: 414 
• Deposited Residue Count: 414 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Cytochrome P450	A	414	Streptomyces aculeolatus	Mutation(s): 0
UniProt
Find proteins for A0A917YWB9 (Nonomuraea cavernae) Explore A0A917YWB9  Go to UniProtKB:  A0A917YWB9

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
PGE	D [auth A]	TRIETHYLENE GLYCOL C6 H14 O4 ZIBGPFATKBEMQZ-UHFFFAOYSA-N
PEG	C [auth A], F [auth A]	DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-UHFFFAOYSA-N
EDO	E [auth A]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.69 Å
• R-Value Free:  0.201 (Depositor), 0.204 (DCC) 
• R-Value Work:  0.167 (Depositor), 0.175 (DCC) 
• R-Value Observed: 0.168 (Depositor) 

Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 75.84	α = 90
b = 140.33	β = 90
c = 48.05	γ = 90

Software Package:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-04-30 
Deposition Author(s): Gao, Q., Yang, J., Xu, L.H.

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2025-04-30
  Type: Initial release