7PDX

Crystal structure of parent MAGE-A10 TCR (728)

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	7	293.15	0.1M PCTP pH 7.0, 25% w/v PEG 1500

Crystal Properties
Matthews coefficient	Solvent content
2.486	50.56

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 54.93	α = 101.94
b = 59.171	β = 105.87
c = 86.02	γ = 104.69

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 PILATUS3 6M		2018-05-16	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I03	0.97625	Diamond	I03

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	2.27	79.011	86.2	0.117	0.166	0.117	0.957	4.3	1.5		38348			14.61

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	2.27	2.34	85		0.21	0.297	0.21	0.898	2.3	1.5

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	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	7PDW	2.27	79.01	38335	1873	86.177	0.195	0.192	0.2516	Random	32.761

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]
0.721	1.047	-0.062	2.877	-0.526	-2.822

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	34.762
r_dihedral_angle_4_deg	15.91
r_dihedral_angle_3_deg	15.399
r_dihedral_angle_1_deg	8.234
r_lrange_it	7.158
r_lrange_other	7.142
r_scangle_other	5.112
r_scangle_it	5.111
r_mcangle_it	4.336
r_mcangle_other	4.336
r_scbond_it	3.317
r_scbond_other	3.313
r_mcbond_it	2.846
r_mcbond_other	2.845
r_angle_refined_deg	1.56
r_angle_other_deg	1.25
r_symmetry_nbd_refined	0.371
r_nbd_other	0.25
r_symmetry_xyhbond_nbd_refined	0.204
r_symmetry_nbd_other	0.19
r_nbd_refined	0.189
r_xyhbond_nbd_refined	0.187
r_nbtor_refined	0.167
r_ncsr_local_group_1	0.111
r_symmetry_xyhbond_nbd_other	0.085
r_symmetry_nbtor_other	0.077
r_ncsr_local_group_2	0.074
r_chiral_restr	0.064
r_bond_refined_d	0.009
r_gen_planes_refined	0.007
r_xyhbond_nbd_other	0.002
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	6744
Nucleic Acid Atoms
Solvent Atoms	299
Heterogen Atoms	7

Software

Software
Software Name	Purpose
REFMAC	refinement
Aimless	data scaling
MOSFLM	data reduction
Coot	model building
PHASER	phasing