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VASCULAR ENDOTHELIAL GROWTH FACTOR IN COMPLEX WITH A NEUTRALIZING ANTIBODY
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2VPF PDB ENTRY 2VPF AND 1FVD experimental model PDB 1FVD PDB ENTRY 2VPF AND 1FVD
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6 pH 6.0
Crystal Properties Matthews coefficient Solvent content 3.6 66
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 89.86 α = 90 b = 66.98 β = 94.27 c = 140.51 γ = 90
Symmetry Space Group P 1 21 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 CCD ADSC QUANTUM 1996-03-02 M
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CHESS BEAMLINE A1 CHESS A1
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 2.4 20 96 0.071 8.6 3.8 63147
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.4 2.48 81.3 0.128 3.5
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-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 2VPF AND 1FVD 2.4 8 60401 5908 94.8 0.196 0.196 0.1854 0.266 0.2416 THIN RESOLUTION SHELLS 42
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] 3.7 -0.31 -8.5 4.8
RMS Deviations Key Refinement Restraint Deviation x_dihedral_angle_d 27.97 x_scangle_it 7.3 x_scbond_it 5 x_mcangle_it 4.1 x_mcbond_it 2.6 x_angle_deg 1.66 x_improper_angle_d 1.47 x_bond_d 0.012 x_bond_d_na x_bond_d_prot
RMS Deviations Key Refinement Restraint Deviation x_dihedral_angle_d 27.97 x_scangle_it 7.3 x_scbond_it 5 x_mcangle_it 4.1 x_mcbond_it 2.6 x_angle_deg 1.66 x_improper_angle_d 1.47 x_bond_d 0.012 x_bond_d_na x_bond_d_prot x_angle_d x_angle_d_na x_angle_d_prot x_angle_deg_na x_angle_deg_prot x_dihedral_angle_d_na x_dihedral_angle_d_prot x_improper_angle_d_na x_improper_angle_d_prot
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8136 Nucleic Acid Atoms Solvent Atoms 548 Heterogen Atoms 10
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling X-PLOR model building X-PLOR refinement X-PLOR phasing