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membrane-bound glutamate carboxypeptidase II (GCPII) in complex with GPI-18431 (S)-2-(4-iodobenzylphosphonomethyl)-pentanedioic acid
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.25 20 MM HEPES PH 7.25, 200 MM NACL, 5% (W/V) PEG 400 AND 15% (W/V) PEG 1500.
Crystal Properties Matthews coefficient Solvent content 3.41 63.68
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 103.127 α = 90 b = 131.189 β = 90 c = 161.225 γ = 90
Symmetry Space Group I 2 2 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 261 CCD MARRESEARCH 2002-12-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE BW7A 0.9537, 1.26 EMBL/DESY, HAMBURG BW7A
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 40 94.3 0.07 15.8 4.8 69874 -3
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 2.07 96.7
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 SAD THROUGHOUT 2 25 68848 1024 94.2 0.191 0.19 0.1975 0.225 0.2167 RANDOM 32.26
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] 0.99 -2.41 1.42
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.376 r_scangle_it 3.092 r_mcangle_it 2.754 r_scbond_it 1.947 r_angle_refined_deg 1.832 r_mcbond_it 1.797 r_angle_other_deg 0.869 r_symmetry_vdw_refined 0.388 r_symmetry_vdw_other 0.3 r_symmetry_hbond_refined 0.261
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.376 r_scangle_it 3.092 r_mcangle_it 2.754 r_scbond_it 1.947 r_angle_refined_deg 1.832 r_mcbond_it 1.797 r_angle_other_deg 0.869 r_symmetry_vdw_refined 0.388 r_symmetry_vdw_other 0.3 r_symmetry_hbond_refined 0.261 r_nbd_other 0.258 r_nbd_refined 0.231 r_xyhbond_nbd_refined 0.21 r_chiral_restr 0.12 r_nbtor_other 0.096 r_bond_refined_d 0.023 r_gen_planes_refined 0.011 r_gen_planes_other 0.01 r_bond_other_d 0.001 r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_nbtor_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_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 5330 Nucleic Acid Atoms Solvent Atoms 186 Heterogen Atoms 187
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling SOLVE/RESOLVE phasing