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Crystal structure of a plant albumin from cicer arietinum showing hemagglutination
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3S0L PDB ENTRY 3S0L
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 295 0.1M sodium caodylate, 0.2M sodium acetate, 18% PEG 8000, 20mM L-arginine, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.62 53.07
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 81.917 α = 90 b = 81.917 β = 90 c = 69.591 γ = 120
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 295 IMAGE PLATE RIGAKU RAXIS IV++ mirrors 2008-08-19 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 2.2 50 98.1 0.074 9.05 1.67 48875 26032 3 2 34
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 2.2 2.24 97.7 0.327 2.24 1302
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 3S0L 2.2 35.3 26032 24713 1319 98.12 0.17896 0.17652 0.1757 0.2229 0.2222 RANDOM 37.726
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] 0.08 0.04 0.08 -0.12
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.95 r_dihedral_angle_4_deg 16.449 r_dihedral_angle_3_deg 16.153 r_dihedral_angle_1_deg 6.542 r_scangle_it 2.967 r_scbond_it 1.832 r_angle_refined_deg 1.325 r_mcangle_it 1.118 r_mcbond_it 0.575 r_chiral_restr 0.096
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.95 r_dihedral_angle_4_deg 16.449 r_dihedral_angle_3_deg 16.153 r_dihedral_angle_1_deg 6.542 r_scangle_it 2.967 r_scbond_it 1.832 r_angle_refined_deg 1.325 r_mcangle_it 1.118 r_mcbond_it 0.575 r_chiral_restr 0.096 r_bond_refined_d 0.011 r_gen_planes_refined 0.005 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined 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 3588 Nucleic Acid Atoms Solvent Atoms 138 Heterogen Atoms 18
Software Software Software Name Purpose CrystalClear data collection PHASER phasing REFMAC refinement DENZO data reduction SCALEPACK data scaling