6XXX

1.25 Angstrom crystal structure of Ca/CaM A102V:RyR2 peptide complex

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	6XXF

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP		293	0.1 M Sodium acetate trihydrate pH 4.0, 25% w/v Polyethylene glycol 1,500

Crystal Properties
Matthews coefficient	Solvent content
1.87	34.06

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 40.11	α = 90
b = 41.8	β = 90
c = 86.02	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	PIXEL	DECTRIS PILATUS3 6M		2018-04-16	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I03	0.97624	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	1.23	41.8	98.37	0.038	0.042	0.017	0.999	18.4	5.6		42088			16.8

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	1.23	1.25	83.25		0.789	0.971	0.553	0.473	1.2	2.6

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	6XXF	1.25	37.624	40399	2015	98.952	0.144	0.1417	0.1892	23.636

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]
-1.27			3.864		-2.594

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	31.718
r_dihedral_angle_4_deg	15.197
r_dihedral_angle_3_deg	14.639
r_rigid_bond_restr	13.187
r_scangle_it	6.194
r_scangle_other	6.194
r_lrange_it	6.09
r_lrange_other	5.767
r_scbond_it	5.479
r_scbond_other	5.479
r_dihedral_angle_1_deg	5.287
r_mcangle_it	3.67
r_mcangle_other	3.669
r_mcbond_it	3.339
r_mcbond_other	3.337
r_angle_refined_deg	2.065
r_angle_other_deg	1.681
r_nbd_other	0.244
r_nbd_refined	0.242
r_symmetry_xyhbond_nbd_other	0.207
r_symmetry_nbd_other	0.197
r_nbtor_refined	0.179
r_symmetry_xyhbond_nbd_refined	0.178
r_xyhbond_nbd_refined	0.172
r_symmetry_nbd_refined	0.15
r_metal_ion_refined	0.126
r_chiral_restr	0.109
r_symmetry_nbtor_other	0.084
r_bond_refined_d	0.017
r_gen_planes_refined	0.012
r_bond_other_d	0.006
r_gen_planes_other	0.004

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1327
Nucleic Acid Atoms
Solvent Atoms	209
Heterogen Atoms	4

Software

Software
Software Name	Purpose
REFMAC	refinement
xia2	data reduction
Aimless	data scaling
MOLREP	phasing