6S4U | pdb_00006s4u

LXRbeta ligand binding domain in comlpex with small molecule inhibitors

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION		293	Unknown.

Crystal Properties
Matthews coefficient	Solvent content
3.65	66.3

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 125.086	α = 90
b = 125.086	β = 90
c = 137.054	γ = 120

Symmetry
Space Group	P 32 2 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	PIXEL	DECTRIS PILATUS 2M		2009-01-15	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SLS BEAMLINE X06DA	1	SLS	X06DA

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (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	2.81	20	99.8	16.56	6.6		30616

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.81	2.9

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	MOLECULAR REPLACEMENT	FREE R-VALUE	2.81	20	30612	761	99.801	0.254	0.2532	0.25	0.2798	0.27	71.109

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]
3.225	1.612		3.225		-10.461

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	39.331
r_dihedral_angle_3_deg	19.274
r_dihedral_angle_4_deg	15.54
r_lrange_other	10.059
r_lrange_it	9.975
r_scangle_other	9.671
r_scangle_it	9.504
r_scbond_other	7.224
r_scbond_it	7.097
r_mcangle_other	4.343
r_mcangle_it	4.328
r_angle_other_deg	4.095
r_mcbond_it	3.883
r_mcbond_other	3.783
r_dihedral_angle_1_deg	2.039
r_angle_refined_deg	1.593
r_nbd_other	0.236
r_symmetry_nbd_other	0.233
r_nbd_refined	0.16
r_symmetry_nbd_refined	0.158
r_nbtor_refined	0.154
r_ncsr_local_group_1	0.122
r_ncsr_local_group_2	0.121
r_ncsr_local_group_3	0.116
r_symmetry_nbtor_other	0.099
r_chiral_restr	0.08
r_xyhbond_nbd_refined	0.068
r_bond_refined_d	0.012
r_gen_planes_other	0.006
r_symmetry_xyhbond_nbd_refined	0.006
r_gen_planes_refined	0.005
r_bond_other_d

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	5742
Nucleic Acid Atoms
Solvent Atoms	18
Heterogen Atoms	96

Software

Software
Software Name	Purpose
REFMAC	refinement
XDS	data reduction
XSCALE	data scaling
MOLREP	phasing