3TYW | pdb_00003tyw

Crystal Structure of CYP105N1 from Streptomyces coelicolor A3(2)

PDB DOI: https://doi.org/10.2210/pdb3TYW/pdb

Classification: OXIDOREDUCTASE
Organism(s): Streptomyces coelicolor
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2011-09-26 Released: 2012-07-11
Deposition Author(s): Zhao, B., Waterman, M.R.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.90 Å
R-Value Free:
0.300 (Depositor), 0.266 (DCC)
R-Value Work:
0.282 (Depositor), 0.254 (DCC)
R-Value Observed:
0.282 (Depositor)

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Ligand Structure Quality Assessment

This is version 1.2 of the entry. See complete history.

Literature

Crystal Structure of CYP105N1 from Streptomyces coelicolor A3(2)

Zhao, B., Waterman, M.R.

To be published.

Macromolecule Content

Total Structure Weight: 186.41 kDa
Atom Count: 12,633
Modeled Residue Count: 1,591
Deposited Residue Count: 1,668
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Putative cytochrome P450	A, B, C, D	417	Streptomyces coelicolor	Mutation(s): 0 Gene Names: SCO7686 EC: 1.14.19.69
UniProt
Find proteins for Q9EWP1 (Streptomyces coelicolor (strain ATCC BAA-471 / A3(2) / M145)) Explore Q9EWP1 Go to UniProtKB: Q9EWP1
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q9EWP1
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
HEM Query on HEM Download:Ideal Coordinates CCD File SDF format, chain H [auth D] SDF format, chain G [auth C] SDF format, chain F [auth B] SDF format, chain E [auth A] MOL2 format, chain H [auth D] MOL2 format, chain G [auth C] MOL2 format, chain F [auth B] MOL2 format, chain E [auth A] mmCIF format, chain H [auth D] mmCIF format, chain G [auth C] mmCIF format, chain F [auth B] mmCIF format, chain E [auth A]	E [auth A], F [auth B], G [auth C], H [auth D]	PROTOPORPHYRIN IX CONTAINING FE C₃₄ H₃₂ Fe N₄ O₄ KABFMIBPWCXCRK-RGGAHWMASA-L		Interactions Focus chain E [auth A] Focus chain F [auth B] Focus chain G [auth C] Focus chain H [auth D] Interactions & Density Focus chain E [auth A] Focus chain F [auth B] Focus chain G [auth C] Focus chain H [auth D]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.90 Å
R-Value Free: 0.300 (Depositor), 0.266 (DCC)
R-Value Work: 0.282 (Depositor), 0.254 (DCC)
R-Value Observed: 0.282 (Depositor)

Space Group: P 6₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 134.537	α = 90
b = 134.537	β = 90
c = 230.58	γ = 120

Software Package:

Software Name	Purpose
HKL-2000	data collection
PHASER	phasing
CNS	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

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Entry History

Deposition Data

Released Date: 2012-07-11

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2012-07-11
Type: Initial release
Version 1.1: 2017-11-08
Changes: Refinement description
Version 1.2: 2024-02-28
Changes: Data collection, Database references, Derived calculations

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.