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Crystal Structure of Collagen-Model Peptide, (POG)3-PRG-(POG)4
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1V4F PDB ENTRY 1V4F
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.6 277 15 % PEG 4000, 0.05M Tris-HCl, 0.005M Lithium Sulfate, pH 7.6, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 1.69 27.07
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 23.285 α = 90 b = 19.567 β = 94.51 c = 49.022 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 ADSC QUANTUM 4r mirrors 2004-03-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL40B2 1.0 SPring-8 BL40B2
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 1.45 8 92.8 0.062 7224 2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (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 1V4F 1.45 8 2 7177 6808 369 85 0.1408 0.149 0.2056 0.2055 RANDOM
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]
Coordinate Error Structure Solution Method Refinement High Resolution Refinement Low Resolution 2 402 591.5
RMS Deviations Key Refinement Restraint Deviation s_zero_chiral_vol 0.057 s_non_zero_chiral_vol 0.044 s_similar_adp_cmpnt 0.035 s_from_restr_planes 0.0287 s_angle_d 0.023 s_bond_d 0.009 s_anti_bump_dis_restr 0.006 s_similar_dist s_rigid_bond_adp_cmpnt s_approx_iso_adps
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 463 Nucleic Acid Atoms Solvent Atoms 129 Heterogen Atoms
Software Software Software Name Purpose CrystalClear data collection X-PLOR model building SHELXL-97 refinement CrystalClear data reduction CrystalClear data scaling X-PLOR phasing