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Structure of Factor Inhibiting HIF (FIH) in complex with Fe, NO, and NOG
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3D8C
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 298 0.1M Hepes, 1.6mM ammonium sulfate, 3% PEG 400
Crystal Properties Matthews coefficient Solvent content 3.41 63.97
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 86.65 α = 90 b = 86.65 β = 90 c = 147.73 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 QUANTUM 315 2014-10-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 24-ID-E 0.9792 APS 24-ID-E
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) 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 2.1 74.74 99.6 0.097 0.025 0.999 16 15 33489
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.1 2.17 96.8 1.092 0.369 0.501 1.9 9.1 2923
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 3D8C 2.1 74.74 30068 3351 99.43 0.1945 0.1896 0.1999 0.2397 0.2469 RANDOM 56.428
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] 0.1 0.1 -0.21
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.35 r_dihedral_angle_4_deg 17.581 r_dihedral_angle_3_deg 15.374 r_dihedral_angle_1_deg 6.871 r_mcangle_it 5.14 r_mcbond_it 3.538 r_mcbond_other 3.507 r_angle_refined_deg 1.89 r_angle_other_deg 0.912 r_chiral_restr 0.123
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.35 r_dihedral_angle_4_deg 17.581 r_dihedral_angle_3_deg 15.374 r_dihedral_angle_1_deg 6.871 r_mcangle_it 5.14 r_mcbond_it 3.538 r_mcbond_other 3.507 r_angle_refined_deg 1.89 r_angle_other_deg 0.912 r_chiral_restr 0.123 r_bond_refined_d 0.019 r_gen_planes_refined 0.01 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2760 Nucleic Acid Atoms Solvent Atoms 99 Heterogen Atoms 45
Software Software Software Name Purpose REFMAC refinement SCALA data scaling PDB_EXTRACT data extraction MOSFLM data reduction PHASER phasing