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Ferredoxin-NADP+ reductase from Plasmodium falciparum with 2'P-AMP
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1JB9
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICROBATCH 6 293 PEG 4000 25%, buffer Na cacodylate, Na acetate 0.2 M, pH 6., microbatch, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.61 52.96
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 123.129 α = 90 b = 123.129 β = 90 c = 133.807 γ = 120
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 4 2005-12-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-3 0.931 ESRF ID14-3
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 2.7 60 98.5 0.102 9.8 2.7 61398 61398
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) 2.7 2.85 98.1 0.476 2.3 2.7 8933
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 (All) 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 1jb9 2.7 30 59148 58273 3082 98.52 0.26303 0.26303 0.25998 0.2561 0.32083 0.3129 RANDOM 15.137
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] 1.44 0.72 1.44 -2.16
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.177 r_dihedral_angle_4_deg 21.843 r_dihedral_angle_3_deg 17.435 r_scangle_it 11.769 r_scbond_it 10.231 r_mcangle_it 6.893 r_dihedral_angle_1_deg 5.933 r_mcbond_it 5.013 r_angle_refined_deg 1.412 r_nbtor_refined 0.3
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.177 r_dihedral_angle_4_deg 21.843 r_dihedral_angle_3_deg 17.435 r_scangle_it 11.769 r_scbond_it 10.231 r_mcangle_it 6.893 r_dihedral_angle_1_deg 5.933 r_mcbond_it 5.013 r_angle_refined_deg 1.412 r_nbtor_refined 0.3 r_symmetry_hbond_refined 0.191 r_xyhbond_nbd_refined 0.143 r_nbd_refined 0.13 r_symmetry_vdw_refined 0.088 r_chiral_restr 0.087 r_gen_planes_refined 0.011 r_bond_refined_d 0.009 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 12949 Nucleic Acid Atoms Solvent Atoms 228 Heterogen Atoms 481
Software Software Software Name Purpose MOLREP phasing REFMAC refinement MOSFLM data reduction CCP4 data scaling