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FACTOR INHIBITING HIF-1 ALPHA with fumarate
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1H2K PDB ENTRY 1H2K
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.5 1.25M AMMONIUM SULFATE, 100MM HEPES PH7.5, 6% PEG400, 1MM IRON (II) SULFATE, 20MM FUMARIC ACID, pH 7.50
Crystal Properties Matthews coefficient Solvent content 3.52 65
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 86.66 α = 90 b = 86.66 β = 90 c = 147.349 γ = 90
Symmetry Space Group P 41 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 ADSC CCD 2005-08-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X25 NSLS X25
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 2.3 37.5 99.7 0.07 28.7 13.9 888919 54.6
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 2.3 2.38 100 2.9 13.9
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 (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1H2K 2.3 74.74 23064 2532 99.5 0.192 0.187 0.2466 0.237 0.2814 RANDOM 43.61
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] 0.56 0.56 -1.13
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.686 r_dihedral_angle_4_deg 21.075 r_dihedral_angle_3_deg 17.862 r_dihedral_angle_1_deg 7.219 r_scangle_it 4.21 r_scbond_it 3.081 r_angle_refined_deg 2.012 r_mcangle_it 1.85 r_mcbond_it 1.558 r_angle_other_deg 1.067
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.686 r_dihedral_angle_4_deg 21.075 r_dihedral_angle_3_deg 17.862 r_dihedral_angle_1_deg 7.219 r_scangle_it 4.21 r_scbond_it 3.081 r_angle_refined_deg 2.012 r_mcangle_it 1.85 r_mcbond_it 1.558 r_angle_other_deg 1.067 r_mcbond_other 0.31 r_symmetry_vdw_other 0.235 r_symmetry_hbond_refined 0.225 r_nbd_refined 0.223 r_xyhbond_nbd_refined 0.218 r_nbd_other 0.209 r_nbtor_refined 0.19 r_symmetry_vdw_refined 0.159 r_chiral_restr 0.129 r_nbtor_other 0.095 r_xyhbond_nbd_other 0.079 r_metal_ion_refined 0.049 r_bond_refined_d 0.026 r_gen_planes_refined 0.01 r_bond_other_d 0.003 r_gen_planes_other 0.003 r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2777 Nucleic Acid Atoms Solvent Atoms 121 Heterogen Atoms 29
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling CNS phasing