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Structure Of Human ADP-Ribosylation Factor-Like 10C
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1ZD9 PDB ENTRY 1ZD9
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 298 PEG 3350 25%, Ammonium Acetate 100mM, 100mM HEPES (7.5), VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.18 43.65
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 41.732 α = 90 b = 62.393 β = 90 c = 63.796 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 IMAGE PLATE RIGAKU RAXIS IV 2005-08-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-E 1.54
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 1.85 44.59 0.032 52 4.5 13639 13639 1 1
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) 1.85 1.92 79.8 0.08 16.25 2.5 1157
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (I) Cut-off Sigma (F) 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 1ZD9 1.85 44.59 1 1 14060 13639 747 97.38 0.20318 0.20068 0.2019 0.25062 0.2081 RANDOM 23.653
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] 0.47 -0.55 0.08
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.9 r_dihedral_angle_4_deg 24.572 r_dihedral_angle_3_deg 14.59 r_dihedral_angle_1_deg 5.549 r_scangle_it 4.467 r_scbond_it 2.706 r_mcangle_it 1.753 r_angle_refined_deg 1.533 r_mcbond_it 1.13 r_nbtor_refined 0.306
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.9 r_dihedral_angle_4_deg 24.572 r_dihedral_angle_3_deg 14.59 r_dihedral_angle_1_deg 5.549 r_scangle_it 4.467 r_scbond_it 2.706 r_mcangle_it 1.753 r_angle_refined_deg 1.533 r_mcbond_it 1.13 r_nbtor_refined 0.306 r_nbd_refined 0.226 r_symmetry_vdw_refined 0.213 r_xyhbond_nbd_refined 0.18 r_symmetry_hbond_refined 0.176 r_chiral_restr 0.096 r_bond_refined_d 0.015 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1245 Nucleic Acid Atoms Solvent Atoms 142 Heterogen Atoms 29
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling MOLREP phasing