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SHEWANELLA BENTHICA DHDPS WITH LYSINE AND PYRUVATE
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4ICN PDB ID 4ICN
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.5 281 22%(W/V) PEG 3350, 100mM TRISODIUM
CITRATE-CITRIC ACID (PH 5.5), VAPOR DIFFUSION, HANGING DROP
TEMPERATURE 281K
Crystal Properties Matthews coefficient Solvent content 3.6 65.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 74.273 α = 90 b = 83.929 β = 90 c = 143.868 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 100 CCD ADSC QUANTUM 315r 2013-03-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX2 0.9537 Australian Synchrotron MX2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.327 47.96 99.7 16.3 7.2 39241
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.327 2.45 97.9 7.3
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 PDB ID 4ICN 2.327 47.96 37140 1963 99.45 0.16473 0.16249 0.1611 0.20634 0.2049 RANDOM 47.267
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] 6.73 -2.41 -4.32
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 43.085 r_dihedral_angle_4_deg 17.471 r_dihedral_angle_3_deg 16.767 r_dihedral_angle_1_deg 6.523 r_scangle_it 5.673 r_scbond_it 3.432 r_mcangle_it 2.103 r_angle_refined_deg 1.966 r_mcbond_it 1.134 r_chiral_restr 0.135
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 43.085 r_dihedral_angle_4_deg 17.471 r_dihedral_angle_3_deg 16.767 r_dihedral_angle_1_deg 6.523 r_scangle_it 5.673 r_scbond_it 3.432 r_mcangle_it 2.103 r_angle_refined_deg 1.966 r_mcbond_it 1.134 r_chiral_restr 0.135 r_bond_refined_d 0.023 r_gen_planes_refined 0.01 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_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4368 Nucleic Acid Atoms Solvent Atoms 315 Heterogen Atoms 57
Software Software Software Name Purpose PHASER phasing REFMAC refinement XDS data reduction SCALA data scaling