7B4I | pdb_00007b4i

Thermostable omega transaminase PjTA-R6 variant W58G engineered for asymmetric synthesis of enantiopure bulky amines

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	7.6	293	Drops were prepared by mixing 1 ul of protein solution (~10 mg/ml in 20 mM HEPES pH 7.5, 100 mM NaCl, 20 uM PLP buffer) with 1 ul of reservoir solution. Reservoir contained 0.7-1M succinic acid pH 7.6. Crystals appeared after 48h.

Crystal Properties
Matthews coefficient	Solvent content
2.83	56.54

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 97.784	α = 90
b = 97.784	β = 90
c = 119.899	γ = 90

Symmetry
Space Group	P 43

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 PILATUS 6M		2020-03-04	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I24	0.9686	DIAMOND	I24

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	1.7	98	99.9	0.038	0.046	0.027	0.999	17.4	5.5		123358

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	Rpim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.7	1.73			0.458	0.563	0.325	0.863		5.5

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 (Depositor)	R-Free (Depositor)	Mean Isotropic B
X-RAY DIFFRACTION	FOURIER SYNTHESIS	FREE R-VALUE	1.7	98	123322	6175	99.9	0.174	0.173	0.191	30.6

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]
0.117			0.117		-0.233

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	35.051
r_dihedral_angle_4_deg	15.711
r_dihedral_angle_3_deg	12.521
r_dihedral_angle_1_deg	6.73
r_lrange_it	5.315
r_lrange_other	5.26
r_scangle_it	4.262
r_scangle_other	4.262
r_scbond_it	2.791
r_scbond_other	2.79
r_mcangle_other	2.608
r_mcangle_it	2.607
r_mcbond_it	1.931
r_mcbond_other	1.925
r_angle_refined_deg	1.397
r_angle_other_deg	1.386
r_nbd_refined	0.204
r_symmetry_xyhbond_nbd_refined	0.18
r_nbd_other	0.174
r_symmetry_nbd_other	0.165
r_nbtor_refined	0.162
r_symmetry_nbd_refined	0.151
r_xyhbond_nbd_refined	0.135
r_symmetry_nbtor_other	0.076
r_chiral_restr	0.073
r_ncsr_local_group_1	0.066
r_bond_refined_d	0.007
r_gen_planes_refined	0.007
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	6907
Nucleic Acid Atoms
Solvent Atoms	428
Heterogen Atoms	38

Software

Software
Software Name	Purpose
DIALS	data processing
Aimless	data scaling
Aimless	data reduction
Coot	model building
REFMAC	refinement
REFMAC	phasing