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Crystal structures of collagen model peptides (Pro-Pro-Gly)4-Hyp-Hyp-Gly-(Pro-Pro-Gly)4
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2CUO PDB 2CUO
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.6 277 PEG 1000, ACETATE BUFFER, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 1.83 32.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 25.987 α = 90 b = 26.668 β = 90.03 c = 79.843 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 95 CCD ADSC QUANTUM 4 1.1-M-LONG BENT-PLANE MIRROR 2004-09-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE BL-6A 0.978 Photon Factory BL-6A
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 1.22 26.61 98.7 0.082 4.5 3.52 32577 1
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) 1.22 1.26 99.8 0.287 2.2 3.79
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-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB 2CUO 1.22 8 1 32044 32044 1627 0.1964 0.1964 0.1934 0.2548 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 823 1158
RMS Deviations Key Refinement Restraint Deviation s_anti_bump_dis_restr 0.145 s_approx_iso_adps 0.076 s_zero_chiral_vol 0.059 s_non_zero_chiral_vol 0.047 s_similar_adp_cmpnt 0.046 s_from_restr_planes 0.0282 s_angle_d 0.024 s_bond_d 0.01 s_rigid_bond_adp_cmpnt 0.004 s_similar_dist
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 895 Nucleic Acid Atoms Solvent Atoms 263 Heterogen Atoms
Software Software Software Name Purpose CrystalClear data collection CrystalClear data reduction X-PLOR model building SHELXL-97 refinement HKL-2000 data reduction CrystalClear data scaling X-PLOR phasing