7ZB2

apo macrocyclase OphP

X-RAY DIFFRACTION

---

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		293	0.2 M sodium acetate, 0.1 M Bis-Tris propane (pH 6.0-6.5) and 28% PEG 3350

Crystal Properties
Matthews coefficient	Solvent content
2.1	41.5

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 69.86	α = 83.97
b = 113.43	β = 82.09
c = 186.32	γ = 76.93

Symmetry
Space Group	P 1

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	100	PIXEL	DECTRIS EIGER2 X 16M		2020-01-27	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I04	0.9795	Diamond	I04

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	Rrim 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	1.94	66.083	97.6	0.075	0.095	1	7.3	2.5		397483

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.94	1.97	96.6		0.938	1.195	0.352	0.9	2.4

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	5N4C	1.94	66.083	397421	19701	97.564	0.214	0.2125	0.241	42.824

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]
2.155	-0.282	0.29	0.025	-2.063	-2.352

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	30.153
r_dihedral_angle_4_deg	15.92
r_dihedral_angle_3_deg	13.918
r_lrange_other	10.453
r_lrange_it	10.446
r_scangle_it	8.737
r_scangle_other	8.736
r_dihedral_angle_1_deg	6.984
r_scbond_it	6.322
r_scbond_other	6.322
r_mcangle_it	6.314
r_mcangle_other	6.314
r_mcbond_it	4.77
r_mcbond_other	4.77
r_angle_refined_deg	1.367
r_angle_other_deg	1.227
r_symmetry_xyhbond_nbd_refined	0.286
r_symmetry_nbd_refined	0.266
r_nbd_other	0.263
r_nbd_refined	0.196
r_symmetry_nbd_other	0.175
r_nbtor_refined	0.165
r_xyhbond_nbd_refined	0.135
r_metal_ion_refined	0.091
r_ncsr_local_group_21	0.084
r_ncsr_local_group_28	0.083
r_ncsr_local_group_17	0.082
r_ncsr_local_group_24	0.079
r_xyhbond_nbd_other	0.077
r_ncsr_local_group_6	0.076
r_ncsr_local_group_22	0.076
r_ncsr_local_group_12	0.075
r_ncsr_local_group_26	0.075
r_symmetry_nbtor_other	0.074
r_ncsr_local_group_20	0.074
r_ncsr_local_group_27	0.072
r_ncsr_local_group_7	0.07
r_ncsr_local_group_14	0.07
r_ncsr_local_group_18	0.07
r_ncsr_local_group_23	0.069
r_ncsr_local_group_25	0.069
r_ncsr_local_group_11	0.068
r_ncsr_local_group_13	0.067
r_ncsr_local_group_9	0.066
r_ncsr_local_group_16	0.066
r_ncsr_local_group_19	0.065
r_ncsr_local_group_5	0.064
r_ncsr_local_group_3	0.063
r_chiral_restr	0.062
r_ncsr_local_group_15	0.062
r_ncsr_local_group_8	0.06
r_ncsr_local_group_10	0.059
r_ncsr_local_group_4	0.058
r_ncsr_local_group_1	0.055
r_ncsr_local_group_2	0.055
r_chiral_restr_other	0.019
r_bond_refined_d	0.007
r_gen_planes_refined	0.006
r_symmetry_xyhbond_nbd_other	0.005
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	46130
Nucleic Acid Atoms
Solvent Atoms	898
Heterogen Atoms	103

Software

Software
Software Name	Purpose
REFMAC	refinement
xia2	data reduction
xia2	data scaling
PHASER	phasing