2Q7N

Crystal structure of Leukemia inhibitory factor in complex with LIF receptor (domains 1-5)


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP82981.5M sodium malonate, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties
Matthews coefficientSolvent content
7.86610184.363281

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 193.476α = 90
b = 240.131β = 90
c = 202.631γ = 90
Symmetry
Space GroupC 2 2 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 225 mm CCDmirrors2005-03-30MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 22-ID0.968APS22-ID

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
142094.20.2266.36.63710437104
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
144.1472.50.8571

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Cut-off Sigma (I)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB ENTRY 1PVH CHAIN B4200.8573523935239185293.630.239780.239780.237240.28696RANDOM102.084
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]
10.49-2.61-7.88
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg40.188
r_dihedral_angle_3_deg24.328
r_dihedral_angle_4_deg20.222
r_dihedral_angle_1_deg8.334
r_scangle_it1.77
r_angle_refined_deg1.739
r_scbond_it1.02
r_mcangle_it0.964
r_mcbond_it0.527
r_nbtor_refined0.327
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg40.188
r_dihedral_angle_3_deg24.328
r_dihedral_angle_4_deg20.222
r_dihedral_angle_1_deg8.334
r_scangle_it1.77
r_angle_refined_deg1.739
r_scbond_it1.02
r_mcangle_it0.964
r_mcbond_it0.527
r_nbtor_refined0.327
r_nbd_refined0.279
r_symmetry_vdw_refined0.235
r_xyhbond_nbd_refined0.204
r_symmetry_hbond_refined0.133
r_chiral_restr0.109
r_bond_refined_d0.015
r_gen_planes_refined0.005
r_bond_other_d
r_angle_other_deg
r_gen_planes_other
r_nbd_other
r_nbtor_other
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms10252
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms587

Software

Software
Software NamePurpose
REFMACrefinement
HKL-2000data collection
HKL-2000data reduction
HKL-2000data scaling
MOLREPphasing