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The Crystal structure of Transmembrane domain of M2 protein and Amantadine complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model Other Polyala, single alpha helix of length 23 residues
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.3 298 Sample solution: 0.8mM protein, 0.6mM Amantadine, 32mM n-octyl-beta-D-glucopyranoside and 5% w/v Xylitol.
Reservoir solution:50mM Tris-Hcl, 500mM MgCl2, 30mM NiCl2, 22% PEG 350 MME, pH 5.3, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K
Crystal Properties Matthews coefficient Solvent content 3.03 59.42
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 60.397 α = 90 b = 57.833 β = 90 c = 38.105 γ = 90
Symmetry Space Group P 21 21 2
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 MAR scanner 345 mm plate Osmic mirrors 2004-12-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU 1.5418
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 3.5 15 92.4 0.105 12.3 4.2 1999 1848 -3 63.1
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 3.5 3.61 100 0.362 3.1 3.7 163
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 Polyala, single alpha helix of length 23 residues 3.5 15 1530 154 91.27 0.29322 0.29054 0.2985 0.31668 0.3046 RANDOM 35.151
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] 0.46 -2.02 1.56
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.455 r_dihedral_angle_3_deg 20.118 r_dihedral_angle_4_deg 14.353 r_dihedral_angle_1_deg 3.541 r_angle_refined_deg 2.165 r_scangle_it 1.165 r_scbond_it 0.651 r_mcangle_it 0.432 r_mcbond_it 0.396 r_nbtor_refined 0.362
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.455 r_dihedral_angle_3_deg 20.118 r_dihedral_angle_4_deg 14.353 r_dihedral_angle_1_deg 3.541 r_angle_refined_deg 2.165 r_scangle_it 1.165 r_scbond_it 0.651 r_mcangle_it 0.432 r_mcbond_it 0.396 r_nbtor_refined 0.362 r_symmetry_vdw_refined 0.355 r_nbd_refined 0.334 r_symmetry_hbond_refined 0.243 r_xyhbond_nbd_refined 0.16 r_chiral_restr 0.11 r_bond_refined_d 0.029 r_gen_planes_refined 0.01 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 772 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 11
Software Software Software Name Purpose MAR345dtb data collection PHASER phasing REFMAC refinement DENZO data reduction SCALEPACK data scaling