8QFU

Diels-Alderase AbyU mutant - Y76F

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	5DYV

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		291	0.25 M Magnesium Chloride 0.1M HEPES 10% PEG 6K

Crystal Properties
Matthews coefficient	Solvent content
2.25	45.45

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 49.71	α = 90.11
b = 53.82	β = 96.98
c = 60.48	γ = 94.66

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	193	PIXEL	DECTRIS EIGER2 XE 16M		2019-01-29	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)	Rrim I (All)	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	1.56	40.58	95.5	0.033	11.3	3.5		84307

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	1.56	1.59			0.7

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	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	1.56	40.577	84306	4233	95.462	0.174	0.1724	0.2079	36.42

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]
2.576	-0.799	0.12	-2.337	-0.487	-0.083

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	18.153
r_dihedral_angle_3_deg	12.775
r_lrange_other	10.504
r_lrange_it	10.48
r_scangle_it	8.542
r_scangle_other	8.541
r_dihedral_angle_2_deg	8.147
r_dihedral_angle_1_deg	6.885
r_scbond_it	5.901
r_scbond_other	5.861
r_mcangle_other	5.86
r_mcangle_it	5.859
r_mcbond_it	4.316
r_mcbond_other	4.312
r_angle_refined_deg	1.915
r_angle_other_deg	0.654
r_xyhbond_nbd_refined	0.24
r_nbd_refined	0.206
r_symmetry_nbd_other	0.201
r_symmetry_xyhbond_nbd_refined	0.192
r_nbtor_refined	0.183
r_symmetry_nbd_refined	0.121
r_symmetry_xyhbond_nbd_other	0.107
r_chiral_restr	0.101
r_nbd_other	0.098
r_symmetry_nbtor_other	0.091
r_chiral_restr_other	0.024
r_bond_refined_d	0.015
r_gen_planes_refined	0.013
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	4120
Nucleic Acid Atoms
Solvent Atoms	484
Heterogen Atoms	60

Software

Software
Software Name	Purpose
REFMAC	refinement
XDS	data reduction
XSCALE	data scaling
MOLREP	phasing