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Crystal structure of cimex nitrophorin complex with CO
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1NTF PDB entry 1NTF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.6 298 PEG 4000, Li2SO4, ethanol, pH 8.6, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.09 41.28
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 49.155 α = 90 b = 41.566 β = 95.48 c = 65.388 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 4 bent Si-mirror 2003-12-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 14-BM-C 0.9 APS 14-BM-C
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 1.45 15 96.7 0.073 10.4 3.7 44739 44739 18.8
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) 1.45 1.5 99.9 0.27 1.6 3.7 4654
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 FOURIER SYNTHESIS THROUGHOUT PDB entry 1NTF 1.45 15 42465 42465 2277 95.53 0.20551 0.20286 0.2378 0.25687 0.283 RANDOM 25.303
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] -0.09 -1.49 -0.04 -0.16
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.824 r_sphericity_free 6.382 r_scangle_it 4.507 r_sphericity_bonded 3.851 r_scbond_it 3.126 r_mcangle_it 2.537 r_angle_refined_deg 1.795 r_rigid_bond_restr 1.795 r_mcbond_it 1.729 r_angle_other_deg 0.922
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.824 r_sphericity_free 6.382 r_scangle_it 4.507 r_sphericity_bonded 3.851 r_scbond_it 3.126 r_mcangle_it 2.537 r_angle_refined_deg 1.795 r_rigid_bond_restr 1.795 r_mcbond_it 1.729 r_angle_other_deg 0.922 r_nbd_refined 0.289 r_nbd_other 0.25 r_symmetry_vdw_other 0.229 r_symmetry_hbond_refined 0.164 r_xyhbond_nbd_refined 0.159 r_chiral_restr 0.12 r_symmetry_vdw_refined 0.114 r_nbtor_other 0.086 r_bond_refined_d 0.02 r_gen_planes_refined 0.009 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2247 Nucleic Acid Atoms Solvent Atoms 199 Heterogen Atoms 45
Software Software Software Name Purpose REFMAC refinement XDISPLAYF data reduction d*TREK data scaling