4E2P | pdb_00004e2p

Crystal Structure of a Post-tailoring Hydroxylase (HmtN) Involved in the Himastatin Biosynthesis

• PDB DOI: https://doi.org/10.2210/pdb4E2P/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Streptomyces himastatinicus ATCC 53653
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2012-03-09 Released: 2013-03-13 
• Deposition Author(s): Zhang, H.D., Chen, J., Wang, H., Huang, L., Zhang, H.J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.36 Å
• R-Value Free: 
  0.280 (Depositor), 0.279 (DCC) 
• R-Value Work: 
  0.239 (Depositor), 0.241 (DCC) 
• R-Value Observed: 
  0.241 (Depositor) 

Starting Model: experimental

Literature

Crystal Structure of a Post-tailoring Hydroxylase (HmtN) Involved in the Himastatin Biosynthesis

Zhang, H.D., Chen, J., Wang, H., Huang, L., Zhang, H.J.

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: 47.82 kDa 
• Atom Count: 3,205 
• Modeled Residue Count: 370 
• Deposited Residue Count: 419 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Cytochrome P450 107B1 (P450CVIIB1)	A	419	Streptomyces himastatinicus ATCC 53653	Mutation(s): 0  Gene Names: hmtN EC: 1.13.12
UniProt
Find proteins for D9WMQ6 (Streptomyces himastatinicus ATCC 53653) Explore D9WMQ6  Go to UniProtKB:  D9WMQ6

Small Molecules

Ligands 2 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
MG	C [auth A], D [auth A], E [auth A], F [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.36 Å
• R-Value Free:  0.280 (Depositor), 0.279 (DCC) 
• R-Value Work:  0.239 (Depositor), 0.241 (DCC) 
• R-Value Observed: 0.241 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 56.14	α = 90
b = 72.29	β = 90
c = 103.29	γ = 90

Software Package:

Software Name	Purpose
CrystalClear	data collection
SOLVE	phasing
REFMAC	refinement
MOSFLM	data reduction
SCALA	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2013-03-13 
Deposition Author(s): Zhang, H.D., Chen, J., Wang, H., Huang, L., Zhang, H.J.

Revision History  

• Version 1.0: 2013-03-13
  Type: Initial release
  
• Version 1.1: 2023-11-08
  Changes: Data collection, Database references, Derived calculations, Refinement description