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Crystal structure of putative GTPase activating protein for ADP ribosylation factor from Cryptosporidium parvum (cgd5_1040)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2CRW PDB ENTRIES 2CRW, 2IQJ experimental model PDB 2IQJ PDB ENTRIES 2CRW, 2IQJ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 297 20% PEG3350, 0.2 M Ammonium formate, 2 mM ZnCl2, VAPOR DIFFUSION, HANGING DROP, temperature 297K
Crystal Properties Matthews coefficient Solvent content 1.81 32.11
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 32.452 α = 90 b = 79.499 β = 90 c = 88.879 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE RIGAKU RAXIS IV++ VERIMAX HR 2007-02-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 50 99.9 0.163 0.163 5.5 6.8 16217 25.8
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2 2.07 99.8 0.766 0.766 2.16 6.5
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 ENTRIES 2CRW, 2IQJ 2 50 15661 15661 506 99.9 0.183 0.181 0.1837 0.246 0.2457 RANDOM 24.53
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] -0.65 0.31 0.34
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.291 r_dihedral_angle_3_deg 16.609 r_dihedral_angle_4_deg 16.197 r_dihedral_angle_1_deg 6.34 r_scangle_it 4.157 r_scbond_it 2.743 r_mcangle_it 1.661 r_angle_refined_deg 1.477 r_mcbond_it 0.976 r_nbtor_refined 0.301
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.291 r_dihedral_angle_3_deg 16.609 r_dihedral_angle_4_deg 16.197 r_dihedral_angle_1_deg 6.34 r_scangle_it 4.157 r_scbond_it 2.743 r_mcangle_it 1.661 r_angle_refined_deg 1.477 r_mcbond_it 0.976 r_nbtor_refined 0.301 r_nbd_refined 0.215 r_symmetry_vdw_refined 0.215 r_xyhbond_nbd_refined 0.16 r_symmetry_hbond_refined 0.12 r_chiral_restr 0.107 r_bond_refined_d 0.017 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2031 Nucleic Acid Atoms Solvent Atoms 178 Heterogen Atoms 2
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing