6YQS | pdb_00006yqs

BRD9 with methylpiperazinyl-benzyl-amino-dimethylpyridazinone

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		277	0.03M NaF, 0.03M NaI, 0.03M NaBr, 0.10M morpheus buffer 3 (1M pH 8.5), 37.5% morpheus MPD_P1K_3350

Crystal Properties
Matthews coefficient	Solvent content
2.39	48.6

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 24.589	α = 70.26
b = 33.867	β = 76.31
c = 39.523	γ = 72.9

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	CCD	RIGAKU SATURN A200		2012-11-12	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	ROTATING ANODE	RIGAKU FR-E+ SUPERBRIGHT	1.541

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	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	1.68	36.77	91.3	0.017	40.2	2.2		11735

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	1.68	1.77	84.3		0.032	20.6	1.9

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-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	Mean Isotropic B
X-RAY DIFFRACTION	FOURIER SYNTHESIS	FREE R-VALUE	1.683	28.015	11682	573	90.882	0.158	0.1556	0.17	0.2007	0.21	19.389

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]
-0.461	-0.352	0.294	0.258	-0.557	-0.218

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	35.643
r_dihedral_angle_3_deg	11.418
r_dihedral_angle_4_deg	10.317
r_lrange_it	6.422
r_lrange_other	6.419
r_dihedral_angle_1_deg	4.151
r_scangle_it	3.555
r_scangle_other	3.553
r_mcangle_it	2.508
r_mcangle_other	2.506
r_scbond_it	2.23
r_scbond_other	2.228
r_mcbond_it	1.591
r_mcbond_other	1.585
r_angle_other_deg	1.302
r_angle_refined_deg	1.221
r_symmetry_xyhbond_nbd_refined	0.246
r_nbd_refined	0.199
r_symmetry_nbd_other	0.179
r_nbtor_refined	0.175
r_nbd_other	0.17
r_xyhbond_nbd_refined	0.161
r_symmetry_nbd_refined	0.148
r_symmetry_nbtor_other	0.082
r_chiral_restr	0.064
r_bond_refined_d	0.006
r_gen_planes_refined	0.005
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	821
Nucleic Acid Atoms
Solvent Atoms	204
Heterogen Atoms	24

Software

Software
Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
SCALA	data scaling