2CF9

Complex of recombinant human thrombin with an inhibitor


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
17.4PH 7.40
Crystal Properties
Matthews coefficientSolvent content
2.7643

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 71.29α = 90
b = 71.84β = 100.56
c = 73.06γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARRESEARCHOSMIC MIRRORS2004-10-16MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODEENRAF-NONIUS FR591

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
11.792091.40.0422.94.5431281-3
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.791.986.60.255.44.13

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONFOURIER SYNTHESISTHROUGHOUTPDB ENTRY 1OYT1.7971.829702158291.50.1620.160.198RANDOM21.94
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]
-0.8-0.440.14
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.102
r_dihedral_angle_4_deg12.718
r_dihedral_angle_3_deg11.608
r_dihedral_angle_1_deg6.117
r_scangle_it2.498
r_scbond_it1.607
r_angle_refined_deg1.359
r_mcangle_it1.035
r_mcbond_it0.59
r_nbtor_refined0.307
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.102
r_dihedral_angle_4_deg12.718
r_dihedral_angle_3_deg11.608
r_dihedral_angle_1_deg6.117
r_scangle_it2.498
r_scbond_it1.607
r_angle_refined_deg1.359
r_mcangle_it1.035
r_mcbond_it0.59
r_nbtor_refined0.307
r_nbd_refined0.19
r_symmetry_hbond_refined0.175
r_symmetry_vdw_refined0.15
r_xyhbond_nbd_refined0.135
r_chiral_restr0.09
r_bond_refined_d0.012
r_gen_planes_refined0.005
r_bond_other_d
r_angle_other_deg
r_gen_planes_other
r_nbd_other
r_nbtor_other
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_other
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 AtomsNumber
Protein Atoms2301
Nucleic Acid Atoms
Solvent Atoms494
Heterogen Atoms35

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
XDSdata scaling