☰ Navigation Tabs
1.00 A Crystal Structure Of L133V Mutant of Nitrophorin 4 From Rhodnius Prolixus Complexed With Nitric Oxide at pH 5.6
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1X8O pdb entry 1X8O
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.6 300 ammonium phosphate, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 300.0K
Crystal Properties Matthews coefficient Solvent content 1.62 23.63
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 70.286 α = 90 b = 42.699 β = 94.27 c = 52.97 γ = 90
Symmetry Space Group C 1 2 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 MARMOSAIC 325 mm CCD 2005-07-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.98 SSRL BL9-2
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 1 36.51 99.8 0.076 0.076 13.9 4.1 83901 9.3
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) 1 1.05 98 98.7 0.178 0.178 5.3 3.4 12069
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 FOURIER SYNTHESIS FREE R pdb entry 1X8O 1 36.47 83900 83900 4242 99.39 0.14 0.14 0.139 0.1407 0.154 0.1536 RANDOM 12.753
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] 0.11 -0.13 -0.18 0.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.905 r_dihedral_angle_4_deg 13.788 r_dihedral_angle_3_deg 11.286 r_dihedral_angle_1_deg 7.158 r_sphericity_free 4.272 r_sphericity_bonded 3.542 r_scangle_it 2.953 r_scbond_it 2.252 r_mcangle_it 1.864 r_angle_refined_deg 1.489
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.905 r_dihedral_angle_4_deg 13.788 r_dihedral_angle_3_deg 11.286 r_dihedral_angle_1_deg 7.158 r_sphericity_free 4.272 r_sphericity_bonded 3.542 r_scangle_it 2.953 r_scbond_it 2.252 r_mcangle_it 1.864 r_angle_refined_deg 1.489 r_mcbond_it 1.278 r_rigid_bond_restr 1.153 r_nbtor_refined 0.303 r_metal_ion_refined 0.302 r_nbd_refined 0.27 r_symmetry_vdw_refined 0.203 r_xyhbond_nbd_refined 0.185 r_chiral_restr 0.1 r_symmetry_hbond_refined 0.08 r_bond_refined_d 0.011 r_gen_planes_refined 0.009
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1689 Nucleic Acid Atoms Solvent Atoms 287 Heterogen Atoms 179
Software Software Software Name Purpose SCALA data scaling REFMAC refinement PDB_EXTRACT data extraction Blu-Ice data collection MOSFLM data reduction CCP4 data scaling