2F5V | pdb_00002f5v

Reaction geometry and thermostability mutant of pyranose 2-oxidase from the white-rot fungus Peniophora sp.

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1		6	293	19 % PEG 6000, MES/NaOH, pH=6.0, 4% n-Propanol additive, VAPOR DIFFUSION, HANGING DROP, temperature 293K, pH 6.00

Crystal Properties
Matthews coefficient	Solvent content
2.35	47.68

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 102.195	α = 90
b = 102.195	β = 90
c = 119.856	γ = 90

Symmetry
Space Group	P 42 21 2

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	MARRESEARCH		2003-10-15	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	EMBL/DESY, HAMBURG BEAMLINE X11		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	1.41	62	97.6	0.058	27			119166		2	15.8

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R-Sym I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.41	1.45	80		0.38	7.3	14.1

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Resolution (High)	Resolution (Low)	Number Reflections (All)	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	1.41	62	119166	116780	2384	100	0.149	0.149	0.1599	0.178	0.1886	RANDOM	16.44

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]
0.8			0.8		-1.61

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	37.999
r_dihedral_angle_4_deg	16.406
r_dihedral_angle_3_deg	12.26
r_dihedral_angle_1_deg	6.917
r_scangle_it	3.24
r_scbond_it	2.334
r_angle_refined_deg	1.605
r_mcangle_it	1.458
r_mcbond_it	1.212
r_angle_other_deg	0.86
r_mcbond_other	0.272
r_nbd_refined	0.213
r_symmetry_vdw_refined	0.206
r_nbd_other	0.19
r_symmetry_vdw_other	0.182
r_nbtor_refined	0.18
r_symmetry_hbond_refined	0.14
r_xyhbond_nbd_refined	0.136
r_chiral_restr	0.102
r_nbtor_other	0.09
r_bond_refined_d	0.015
r_gen_planes_refined	0.008
r_bond_other_d	0.003
r_gen_planes_other	0.001
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	4549
Nucleic Acid Atoms
Solvent Atoms	800
Heterogen Atoms	85

Software

Software
Software Name	Purpose
REFMAC	refinement
MAR345	data collection
XDS	data scaling
EPMR	phasing