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Crystal Structure of Aspergillus niger EstA
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1THG Chimera model built from 1THG and 1MAA experimental model PDB 1MAA Chimera model built from 1THG and 1MAA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 277 15% PEG 6K, 100mM AmSO4, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 4.01 69.33
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 167.489 α = 90 b = 167.489 β = 90 c = 112.827 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 100 CCD ADSC QUANTUM 4 2000-03-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-2 0.933 ESRF ID14-2
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 30 100 0.063 7.6 3.9 104730 40
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 Chimera model built from 1THG and 1MAA 2.1 30 103714 1006 99.99 0.15779 0.15754 0.1693 0.18412 0.1896 RANDOM 26.572
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] -1.13 -0.56 -1.13 1.69
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.759 r_scangle_it 3.137 r_scbond_it 1.952 r_angle_refined_deg 1.287 r_mcangle_it 1.117 r_mcbond_it 0.582 r_symmetry_hbond_refined 0.281 r_nbd_refined 0.228 r_symmetry_vdw_refined 0.194 r_xyhbond_nbd_refined 0.169
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.759 r_scangle_it 3.137 r_scbond_it 1.952 r_angle_refined_deg 1.287 r_mcangle_it 1.117 r_mcbond_it 0.582 r_symmetry_hbond_refined 0.281 r_nbd_refined 0.228 r_symmetry_vdw_refined 0.194 r_xyhbond_nbd_refined 0.169 r_chiral_restr 0.09 r_bond_refined_d 0.013 r_gen_planes_refined 0.005 r_bond_other_d r_angle_other_deg r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_gen_planes_other r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_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 7939 Nucleic Acid Atoms Solvent Atoms 1149 Heterogen Atoms 289
Software Software Software Name Purpose REFMAC refinement DENZO data reduction CCP4 data scaling AMoRE phasing