3GBW

Crystal structure of the first PHR domain of the Mouse Myc-binding protein 2 (MYCBP-2)

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	6.5	294	100mM Sodium acetate pH 4.6, 25% PEG 8000, VAPOR DIFFUSION, SITTING DROP, temperature 294K

Crystal Properties
Matthews coefficient	Solvent content
2.22	44.64

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 41.688	α = 90
b = 57.767	β = 90
c = 64.633	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	CCD	MAR CCD 165 mm		2008-02-03	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	APS BEAMLINE 31-ID	0.97929	APS	31-ID

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Sym 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	1.32	41.7	99.7	0.052	23.2	11.6		37295			11.84

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R-Sym I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
	1.32	1.39	100		0.195	16.4	10.8	5369

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 (Observed)	R-Work	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	SAD	THROUGHOUT	1.32	18.45	37210	1864	99.59	0.164	0.162	0.189	RANDOM	14.566

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]
-0.12			0.01		0.11

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	30.53
r_dihedral_angle_4_deg	18.302
r_dihedral_angle_3_deg	10.037
r_dihedral_angle_1_deg	6.668
r_sphericity_free	4.561
r_scangle_it	3.206
r_rigid_bond_restr	2.529
r_scbond_it	2.381
r_sphericity_bonded	2.304
r_mcangle_it	1.581
r_angle_refined_deg	1.318
r_mcbond_it	1.218
r_angle_other_deg	0.806
r_mcbond_other	0.391
r_symmetry_vdw_refined	0.269
r_nbd_refined	0.215
r_symmetry_vdw_other	0.208
r_nbd_other	0.193
r_nbtor_refined	0.183
r_xyhbond_nbd_refined	0.124
r_chiral_restr	0.085
r_nbtor_other	0.085
r_symmetry_hbond_refined	0.083
r_bond_refined_d	0.009
r_gen_planes_refined	0.006
r_bond_other_d	0.002
r_gen_planes_other	0.002

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1296
Nucleic Acid Atoms
Solvent Atoms	217
Heterogen Atoms

Software

Software
Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction
MAR345	data collection
MOSFLM	data reduction
SCALA	data scaling
HKL2Map	phasing