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Crystal Structure of the novel secretory signalling protein from Porcine (SPP-40) at 2.1A resolution.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1XHG
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.8 298 25mM tris-HCl, 50mM NaCl, 20% ethanol, pH 7.8, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.8 56
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 62.588 α = 90 b = 66.551 β = 90 c = 107.466 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 293 IMAGE PLATE MARRESEARCH MIRROR 2004-09-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200 1.5412
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.1 56.8 97.1 0.079 11 25754 24978 31
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.1 2.2 95.5 0.438 2.7
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-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1xhg 2.1 56.8 24978 23699 1279 96.81 0.1899 0.18984 0.18782 0.22753 RANDOM 32.85
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] 0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 19.438 r_scangle_it 4.711 r_dihedral_angle_1_deg 3.893 r_scbond_it 2.848 r_mcangle_it 2.177 r_angle_refined_deg 1.877 r_angle_other_deg 1.341 r_mcbond_it 1.142 r_nbtor_other 0.425 r_nbd_refined 0.255
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 19.438 r_scangle_it 4.711 r_dihedral_angle_1_deg 3.893 r_scbond_it 2.848 r_mcangle_it 2.177 r_angle_refined_deg 1.877 r_angle_other_deg 1.341 r_mcbond_it 1.142 r_nbtor_other 0.425 r_nbd_refined 0.255 r_nbd_other 0.227 r_symmetry_vdw_other 0.188 r_symmetry_vdw_refined 0.177 r_chiral_restr 0.147 r_xyhbond_nbd_refined 0.142 r_xyhbond_nbd_other 0.1 r_symmetry_hbond_refined 0.085 r_bond_refined_d 0.017 r_gen_planes_refined 0.007 r_gen_planes_other 0.003 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2875 Nucleic Acid Atoms Solvent Atoms 244 Heterogen Atoms 28
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing