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X-RAY STRUCTURE OF GENE PRODUCT FROM ARABIDOPSIS THALIANA AT5G08170, AGMATINE IMINOHYDROLASE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7 297 10 mg/ml protein, 18% PEG 4000, 8% ethylene glycol, 100 mM MOPS, Vapor diffusion, hanging drop, pH 7.00, temperature 297K
Crystal Properties Matthews coefficient Solvent content 2.55 51.78
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.02 α = 90 b = 115.813 β = 97.1 c = 66.634 γ = 90
Symmetry Space Group P 1 21 1
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 MAR CCD 165 mm RH MIRROR 2004-04-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 32-ID APS 32-ID
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 1.53 25 98.2 0.091 11.69 7.9 127993
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) 1.53 1.58 96.3 0.322 3.23 6.4
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 SAD THROUGHOUT 1.53 19.88 113920 6038 100 0.148 0.146 0.1774 0.174 0.1948 RANDOM 17.43
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.336 r_scangle_it 5.799 r_scbond_it 3.813 r_mcangle_it 2.676 r_angle_refined_deg 1.556 r_mcbond_it 1.545 r_angle_other_deg 0.915 r_mcbond_other 0.307 r_symmetry_vdw_other 0.306 r_nbd_other 0.258
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.336 r_scangle_it 5.799 r_scbond_it 3.813 r_mcangle_it 2.676 r_angle_refined_deg 1.556 r_mcbond_it 1.545 r_angle_other_deg 0.915 r_mcbond_other 0.307 r_symmetry_vdw_other 0.306 r_nbd_other 0.258 r_nbd_refined 0.217 r_nbtor_refined 0.18 r_symmetry_hbond_refined 0.172 r_xyhbond_nbd_refined 0.167 r_symmetry_vdw_refined 0.162 r_chiral_restr 0.097 r_nbtor_other 0.084 r_bond_refined_d 0.02 r_gen_planes_refined 0.01 r_gen_planes_other 0.01 r_bond_other_d 0.003 r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5853 Nucleic Acid Atoms Solvent Atoms 779 Heterogen Atoms 67
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling SOLVE phasing RESOLVE phasing REFMAC refinement PDB_EXTRACT data extraction ARP/wARP model building