8DOG

Dehaloperoxidase B in complex with Bisphenol E

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	3IXF

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION	6.5	277	MPEG 2000, Ammonium Sulfate, Sodium Cacodylate

Crystal Properties
Matthews coefficient	Solvent content
2.25	45.27

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 60.827	α = 90
b = 67.344	β = 90
c = 67.656	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	RAYONIX MX300-HS		2021-04-18	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	APS BEAMLINE 22-BM	1.000	APS	22-BM

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	Rpim I (All)	CC (Half)	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	1.48	37.58	99.24	0.057	0.03	0.99	24	4.5		46747

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.48	1.518			0.76

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 (All)	R-Work	R-Free	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	3IXF	1.48	37.578	46747	2234	99.24	0.128	0.1261	0.172	14.421

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]
-1.393			1.061		0.332

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	35.472
r_dihedral_angle_4_deg	24.464
r_dihedral_angle_3_deg	14.581
r_dihedral_angle_1_deg	5.775
r_rigid_bond_restr	5.043
r_scangle_it	3.943
r_scangle_other	3.939
r_lrange_it	3.826
r_lrange_other	3.675
r_scbond_it	3.519
r_scbond_other	3.515
r_mcangle_it	2.552
r_mcangle_other	2.551
r_mcbond_it	2.147
r_mcbond_other	2.139
r_angle_refined_deg	2.09
r_angle_other_deg	1.706
r_nbd_refined	0.27
r_symmetry_xyhbond_nbd_refined	0.198
r_nbd_other	0.195
r_nbtor_refined	0.194
r_symmetry_nbd_other	0.185
r_symmetry_nbd_refined	0.183
r_xyhbond_nbd_refined	0.17
r_xyhbond_nbd_other	0.149
r_chiral_restr	0.112
r_symmetry_nbtor_other	0.088
r_symmetry_xyhbond_nbd_other	0.086
r_bond_refined_d	0.015
r_gen_planes_refined	0.013
r_gen_planes_other	0.009
r_bond_other_d	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2132
Nucleic Acid Atoms
Solvent Atoms	261
Heterogen Atoms	145

Software

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