7BO7 | pdb_00007bo7

CRYSTAL STRUCTURE OF THE HUMAN PRMT5:MEP50 COMPLEX with JNJB44355437

X-RAY DIFFRACTION

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Starting Model(s)

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

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		277.15	PEG3350, 150mM ammonium sulfate

Crystal Properties
Matthews coefficient	Solvent content
2.8	56.02

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 101.19	α = 90
b = 137.25	β = 90
c = 179.37	γ = 90

Symmetry
Space Group	I 2 2 2

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 2M		2015-02-12	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I04-1	0.91741	Diamond	I04-1

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	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	2.83	60.367	99.7	0.992	10	6.2		30068

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.83	2.98	99.1		1.379	0.9

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 (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	6RLQ	2.83	60.367	30067	1310	99.596	0.207	0.205	0.21	0.25	0.25	64.138

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]
4.717			2.329		-7.046

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	33.864
r_dihedral_angle_4_deg	19.965
r_dihedral_angle_3_deg	18.955
r_lrange_it	11.915
r_lrange_other	11.915
r_dihedral_angle_1_deg	7.804
r_mcangle_it	7.783
r_scangle_it	7.783
r_scangle_other	7.783
r_mcangle_other	7.782
r_mcbond_it	5.115
r_mcbond_other	5.109
r_scbond_it	4.952
r_scbond_other	4.952
r_angle_refined_deg	1.568
r_angle_other_deg	1.227
r_symmetry_xyhbond_nbd_refined	0.293
r_nbd_refined	0.206
r_symmetry_nbd_refined	0.199
r_symmetry_nbd_other	0.195
r_nbd_other	0.186
r_nbtor_refined	0.17
r_xyhbond_nbd_refined	0.166
r_symmetry_nbtor_other	0.08
r_chiral_restr	0.065
r_symmetry_xyhbond_nbd_other	0.026
r_bond_refined_d	0.007
r_gen_planes_refined	0.006
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	7262
Nucleic Acid Atoms
Solvent Atoms	52
Heterogen Atoms	63

Software

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