6FSL | pdb_00006fsl

F194W mutant of the dye-decolorizing peroxidase (DYP) from Pleurotus ostreatus

PDB DOI: https://doi.org/10.2210/pdb6FSL/pdb

Classification: OXIDOREDUCTASE
Organism(s): Pleurotus ostreatus
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2018-02-19 Released: 2019-03-13
Deposition Author(s): Romero, A., Davo-Siguero, I.
Funding Organization(s): Spanish Ministry of Economy and Competitiveness

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.50 Å
R-Value Free:
0.243 (Depositor), 0.241 (DCC)
R-Value Work:
0.181 (Depositor), 0.186 (DCC)
R-Value Observed:
0.184 (Depositor)

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

Validation slider image for 6FSL

Ligand Structure Quality Assessment

This is version 1.1 of the entry. See complete history.

Literature

Structure of two mutants: F194Y and F194W of the Dye-decolorizing peroxidase DYP from Pleurotus ostreatus

Romero, A., Davo-Siguero, I., Martinez, A.T.

To be published.

Macromolecule Content

Total Structure Weight: 107.48 kDa
Atom Count: 7,766
Modeled Residue Count: 968
Deposited Residue Count: 968
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
DyP-type peroxidase	A, B	484	Pleurotus ostreatus	Mutation(s): 1 Gene Names: DyP4, PLEOSDRAFT_1069077
UniProt
Find proteins for A0A067N4E7 (Pleurotus ostreatus (strain PC15)) Explore A0A067N4E7 Go to UniProtKB: A0A067N4E7
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A067N4E7
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 C [auth A] SDF format, chain D [auth B] MOL2 format, chain C [auth A] MOL2 format, chain D [auth B] mmCIF format, chain C [auth A] mmCIF format, chain D [auth B]	C [auth A], D [auth B]	PROTOPORPHYRIN IX CONTAINING FE C₃₄ H₃₂ Fe N₄ O₄ KABFMIBPWCXCRK-RGGAHWMASA-L		Interactions Focus chain C [auth A] Focus chain D [auth B] Interactions & Density Focus chain C [auth A] Focus chain D [auth B]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.50 Å
R-Value Free: 0.243 (Depositor), 0.241 (DCC)
R-Value Work: 0.181 (Depositor), 0.186 (DCC)
R-Value Observed: 0.184 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 61.869	α = 90
b = 118.14	β = 90
c = 133.078	γ = 90

Software Package:

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

Structure Validation

View Full Validation Report

Ligand Structure Quality Assessment

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2019-03-13

Deposition Author(s):

Davo-Siguero, I.

Funding Organization	Location	Grant Number
Spanish Ministry of Economy and Competitiveness	Spain	BFU2016-77835-R

Revision History (Full details and data files)

Version 1.0: 2019-03-13
Type: Initial release
Version 1.1: 2024-01-17
Changes: Data collection, Database references, Refinement description

RCSB PDB is hosted by

RCSB PDB is a member of

RCSB Partners
Nucleic Acid Knowledgebase

CoreTrustSeal

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.