3FJW | pdb_00003fjw

Crystal Structure Analysis of Fungal Versatile Peroxidase from Pleurotus eryngii

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1QPA	PDB ENTRY 1QPA

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	7	298	8.0mg/ml protein in 10mM Na-citrate pH 4.0, 1.9M ammonium sulphate, 6% PEG 400, 100mM HEPES pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Properties
Matthews coefficient	Solvent content
2.78	55.69

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 73.141	α = 90
b = 92.762	β = 90
c = 113.278	γ = 90

Symmetry
Space Group	P 21 21 21

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	100	CCD	MARMOSAIC 325 mm CCD		2001-08-14	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	EMBL/DESY, HAMBURG BEAMLINE X11	0.8499	EMBL/DESY, HAMBURG	X11

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Sym I (Observed)	Net I Over Average Sigma (I)	Redundancy	Number Reflections (All)	Number Reflections (Observed)	Observed Criterion Sigma (F)	Observed Criterion Sigma (I)	B (Isotropic) From Wilson Plot
1	2.35	50	93.7	0.112	11.3		20657	19316	2	2

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (Observed)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	PDB ENTRY 1QPA	2.8	39.17	17415	942	93.73	0.16277	0.15832	0.1591	0.24629	0.2454	RANDOM	22.013

Temperature Factor Modeling
Anisotropic B[1][1]	Anisotropic B[1][2]	Anisotropic B[1][3]	Anisotropic B[2][2]	Anisotropic B[2][3]	Anisotropic B[3][3]
1.36			0.66		-2.02

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	36.09
r_dihedral_angle_4_deg	17.672
r_dihedral_angle_3_deg	16.346
r_dihedral_angle_1_deg	6.221
r_mcangle_it	1.186
r_scangle_it	1.016
r_angle_refined_deg	0.747
r_mcbond_it	0.675
r_scbond_it	0.642
r_nbtor_refined	0.326
r_symmetry_vdw_refined	0.295
r_symmetry_hbond_refined	0.277
r_nbd_refined	0.234
r_xyhbond_nbd_refined	0.221
r_metal_ion_refined	0.163
r_chiral_restr	0.049
r_bond_refined_d	0.011
r_gen_planes_refined	0.003

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	4866
Nucleic Acid Atoms
Solvent Atoms	452
Heterogen Atoms	230

Software

Software
Software Name	Purpose
REFMAC	refinement