7OE4 | pdb_00007oe4

C-TERMINAL BROMODOMAIN OF HUMAN BRD2 WITH N-methyl-4-propionyl-1H-pyrrole-2-carboxamide

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
other		In house

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION		298	30% PEG 300, 0.1M MES buffer pH6.5

Crystal Properties
Matthews coefficient	Solvent content
2.23	44.87

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 71.325	α = 90
b = 52.773	β = 90
c = 31.845	γ = 90

Symmetry
Space Group	P 21 21 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	CCD	RIGAKU SATURN A200		2015-01-14	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	ROTATING ANODE	RIGAKU FR-E+ SUPERBRIGHT	1.54178

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	1.65	42.42	95.9	0.999	31.3	3		14271

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.65	1.74	85.2		0.821	5.8	2.5

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 (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	Mean Isotropic B
X-RAY DIFFRACTION	FOURIER SYNTHESIS	FREE R-VALUE	In house	1.653	42.42	14214	699	94.836	0.158	0.1565	0.17	0.1847	0.2	23.595

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]
0.379			-0.777		0.398

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	32.518
r_dihedral_angle_4_deg	19.244
r_dihedral_angle_3_deg	11.293
r_lrange_it	5.697
r_lrange_other	5.697
r_dihedral_angle_1_deg	4.884
r_scangle_it	3.215
r_scangle_other	3.212
r_scbond_it	1.936
r_scbond_other	1.934
r_mcangle_other	1.755
r_mcangle_it	1.748
r_angle_other_deg	1.221
r_angle_refined_deg	1.15
r_mcbond_it	1.077
r_mcbond_other	1.042
r_nbd_refined	0.194
r_nbtor_refined	0.163
r_symmetry_nbd_other	0.161
r_nbd_other	0.153
r_symmetry_nbd_refined	0.128
r_xyhbond_nbd_refined	0.107
r_symmetry_xyhbond_nbd_refined	0.101
r_symmetry_nbtor_other	0.078
r_chiral_restr	0.059
r_gen_planes_refined	0.004
r_bond_refined_d	0.003
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	931
Nucleic Acid Atoms
Solvent Atoms	202
Heterogen Atoms	53

Software

Software
Software Name	Purpose
REFMAC	refinement
autoPROC	data reduction
Aimless	data scaling