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1.4 Angstrom crystal structure of P.pastoris aquaporin, Aqy1, in a closed conformation at pH 8.0
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1J4N PDB ENTRY 1J4N
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8 28% PEG600, 0.05 M HEPES PH 8.0, 1.0 MM ZNSO4
Crystal Properties Matthews coefficient Solvent content 2.77 55.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 90.929 α = 90 b = 90.929 β = 90 c = 80.624 γ = 90
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 MARRESEARCH MIRRORS 2007-09-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-2 ESRF ID23-2
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 1.4 64.5 100 0.09 12.2 5.3 65261 1.8 11.235
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 1.4 1.48 100 0.71 1.8 3.4
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1J4N 1.4 64.282 64431 3261 99.978 0.161 0.1602 0.1572 0.1785 0.1755 RANDOM 11.401
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] -0.149 -0.149 0.299
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.643 r_dihedral_angle_4_deg 18.36 r_dihedral_angle_3_deg 12.772 r_dihedral_angle_1_deg 4.336 r_scangle_it 1.967 r_scbond_it 1.42 r_angle_refined_deg 1.07 r_mcangle_it 1.003 r_mcbond_it 0.684 r_nbtor_refined 0.32
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.643 r_dihedral_angle_4_deg 18.36 r_dihedral_angle_3_deg 12.772 r_dihedral_angle_1_deg 4.336 r_scangle_it 1.967 r_scbond_it 1.42 r_angle_refined_deg 1.07 r_mcangle_it 1.003 r_mcbond_it 0.684 r_nbtor_refined 0.32 r_nbd_refined 0.203 r_symmetry_vdw_refined 0.164 r_xyhbond_nbd_refined 0.114 r_symmetry_hbond_refined 0.099 r_chiral_restr 0.07 r_bond_refined_d 0.008 r_gen_planes_refined 0.005 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_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 2001 Nucleic Acid Atoms Solvent Atoms 133 Heterogen Atoms 82
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing