7SJC

Crystal structure of dehaloperoxidase B in complex with gamma-terpinene

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	6.5	277	MPEG 2000, ammonium sulfate, Na cacodylate

Crystal Properties
Matthews coefficient	Solvent content
2.22	44.53

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 59.817	α = 90
b = 67.606	β = 90
c = 67.62	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		2021-07-31	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)	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	1.7	47.81	99.81	9.1	0.996	10	4.6		30764

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	1.7	1.74			0.768

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	THROUGHOUT	3IXF	1.7	47.81	30764	1408	99.805	0.201	0.1989	0.2453	30.962

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]
4.039			-2.575		-1.464

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	35.514
r_dihedral_angle_4_deg	20.473
r_dihedral_angle_3_deg	16.685
r_lrange_it	7.886
r_lrange_other	7.883
r_dihedral_angle_1_deg	5.769
r_scangle_it	4.302
r_scangle_other	4.286
r_mcangle_it	3.184
r_mcangle_other	3.184
r_scbond_it	2.878
r_scbond_other	2.864
r_mcbond_it	2.205
r_mcbond_other	2.205
r_angle_refined_deg	1.555
r_angle_other_deg	1.424
r_nbd_refined	0.261
r_symmetry_nbd_other	0.216
r_symmetry_nbd_refined	0.214
r_nbd_other	0.208
r_nbtor_refined	0.178
r_symmetry_xyhbond_nbd_refined	0.145
r_xyhbond_nbd_refined	0.138
r_chiral_restr	0.083
r_symmetry_nbtor_other	0.08
r_symmetry_xyhbond_nbd_other	0.017
r_bond_refined_d	0.009
r_gen_planes_refined	0.009
r_gen_planes_other	0.006
r_bond_other_d	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2140
Nucleic Acid Atoms
Solvent Atoms	125
Heterogen Atoms	134

Software

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