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P1 Crystal structure of the N-terminal R1-R7 of murine MVP
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3GF5 PDB ENTRY 3GF5
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.6 277 20%PEG 5000, 0.1M Sodium Citrate, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.68 54.12
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 29.562 α = 101.69 b = 51.892 β = 92.28 c = 79.338 γ = 99.41
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 315r 2007-04-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 0.979 ESRF ID23-1
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 2.1 30 0.031 14.3 26128 2 1
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 MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 3GF5 2.1 30 16870 23954 1256 95.16 0.23952 0.23754 0.2547 0.27622 0.2891 RANDOM 38.566
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 0.93 1.63 0.76 4 2.29
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.214 r_dihedral_angle_4_deg 22.042 r_dihedral_angle_3_deg 18.443 r_dihedral_angle_1_deg 6.679 r_scangle_it 2.397 r_scbond_it 1.452 r_angle_refined_deg 1.264 r_mcangle_it 0.894 r_mcbond_it 0.515 r_nbtor_refined 0.307
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.214 r_dihedral_angle_4_deg 22.042 r_dihedral_angle_3_deg 18.443 r_dihedral_angle_1_deg 6.679 r_scangle_it 2.397 r_scbond_it 1.452 r_angle_refined_deg 1.264 r_mcangle_it 0.894 r_mcbond_it 0.515 r_nbtor_refined 0.307 r_symmetry_hbond_refined 0.245 r_nbd_refined 0.199 r_symmetry_vdw_refined 0.145 r_xyhbond_nbd_refined 0.139 r_chiral_restr 0.087 r_bond_refined_d 0.01 r_gen_planes_refined 0.004 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 2896 Nucleic Acid Atoms Solvent Atoms 59 Heterogen Atoms
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling SHARP phasing DM phasing REFMAC refinement PDB_EXTRACT data extraction ADSC data collection MOLREP phasing