8EJN

Structure of dehaloperoxidase A in complex with 2,4-dichlorophenol

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP		277	27-33% PEG 4000, 0.2 M Ammonium Sulfate, 0.020 M Sodium Cacodylate, pH 6.0-6.5

Crystal Properties
Matthews coefficient	Solvent content
2.17	43.26

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 57.881	α = 90
b = 67.323	β = 90
c = 69.199	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		2021-09-22	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	APS BEAMLINE 22-BM	1.0000	APS	22-BM

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	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	37.091	98.03	0.063	0.07	0.03	1	21.9	5.2		44772

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Rpim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.481	1.519			0.641	0.369	0.701

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	1EW6	1.481	37.091	44772	2306	98.029	0.162	0.1597	0.2111	13.254

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]
-2.601			2.087		0.513

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	34.009
r_dihedral_angle_4_deg	23.969
r_dihedral_angle_3_deg	15.042
r_rigid_bond_restr	9.302
r_dihedral_angle_1_deg	6.074
r_lrange_it	4.492
r_lrange_other	4.273
r_scangle_other	3.842
r_scangle_it	3.837
r_scbond_other	3.372
r_scbond_it	3.366
r_mcangle_it	1.977
r_mcangle_other	1.976
r_angle_refined_deg	1.88
r_mcbond_other	1.637
r_mcbond_it	1.636
r_angle_other_deg	1.63
r_nbd_refined	0.243
r_nbd_other	0.215
r_symmetry_xyhbond_nbd_refined	0.192
r_symmetry_nbd_other	0.191
r_symmetry_nbd_refined	0.185
r_nbtor_refined	0.18
r_xyhbond_nbd_refined	0.161
r_chiral_restr	0.095
r_symmetry_nbtor_other	0.082
r_bond_refined_d	0.014
r_gen_planes_refined	0.011
r_gen_planes_other	0.005
r_bond_other_d	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2182
Nucleic Acid Atoms
Solvent Atoms	319
Heterogen Atoms	140

Software

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