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VASCULAR ENDOTHELIAL GROWTH FACTOR REFINED TO 1.93 ANGSTROMS RESOLUTION
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1VPF PDB ENTRY 1VPF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.6 HANGING DROP, CRYSTALLIZED FROM 14 % PEG3350, 10% ISOPROPANOL, 0.2 M AMMONIUM ACETATE PH 5.6, vapor diffusion - hanging drop
Crystal Properties Matthews coefficient Solvent content 2.7 54
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 45.47 α = 105.44 b = 68.47 β = 93.71 c = 85.82 γ = 101.49
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 PRINCETON 2K 1996-03-26 M
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CHESS BEAMLINE F1 CHESS F1
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 1.9 20 94 0.044 9.4 2.5 72050
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) 1.9 2 80.8 0.127 1.5
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-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 1VPF 1.93 16 68901 7074 94 0.209 0.2089 0.272 0.27 RESOLUTION SHELLS 47.1
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] -8.56 0.76 1.22 3.09 1.64 5.47
RMS Deviations Key Refinement Restraint Deviation p_transverse_tor 29.9 p_staggered_tor 18.2 p_planar_tor 4.1 p_scangle_it 3.892 p_mcangle_it 2.778 p_scbond_it 2.468 p_mcbond_it 2.01 p_multtor_nbd 0.243 p_xyhbond_nbd 0.189 p_singtor_nbd 0.179
RMS Deviations Key Refinement Restraint Deviation p_transverse_tor 29.9 p_staggered_tor 18.2 p_planar_tor 4.1 p_scangle_it 3.892 p_mcangle_it 2.778 p_scbond_it 2.468 p_mcbond_it 2.01 p_multtor_nbd 0.243 p_xyhbond_nbd 0.189 p_singtor_nbd 0.179 p_chiral_restr 0.113 p_planar_d 0.032 p_angle_d 0.03 p_bond_d 0.011 p_angle_deg p_hb_or_metal_coord p_plane_restr p_xhyhbond_nbd p_orthonormal_tor p_special_tor
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6142 Nucleic Acid Atoms Solvent Atoms 640 Heterogen Atoms
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling X-PLOR model building REFMAC refinement X-PLOR refinement X-PLOR phasing