1A46

THROMBIN COMPLEXED WITH HIRUGEN AND A BETA-STRAND MIMETIC INHIBITOR


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1HAHPDB ENTRY 1HAH

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1vapor diffusion - hanging drop and macroseeding7.30.1 M SODIUM PHOSPHATE BUFFER, PH 7.3, 27-28 % PEG 8000, HANGING DROPS AND MACROSEEDING; THEN SOAKED IN PEG-PHOSPHATE-0.1 M NACL, AND THE MOL 106 INHIBITOR WAS ADDED IN 3 STEPS WITH FINAL CONC. 7.3 MM, vapor diffusion - hanging drop and macroseeding
Crystal Properties
Matthews coefficientSolvent content
2.451

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 71.3α = 90
b = 73.09β = 101.12
c = 73.82γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray298AREA DETECTORSIEMENSCOLLIMATOR1995-05-15M
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU RUH2R

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
12.12860.04423.8318219
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)
12.122.26600.2293.51.7

Refinement

Statistics
Diffraction IDStructure Solution MethodStarting modelResolution (High)Resolution (Low)Cut-off Sigma (F)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-WorkR-FreeMean Isotropic B
X-RAY DIFFRACTIONPREVIOUS STRUCTUREPDB ENTRY 1HAH2.127415585750.15524
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]
RMS Deviations
KeyRefinement Restraint Deviation
p_transverse_tor30
p_staggered_tor21
p_planar_tor4
p_scangle_it3.5
p_scbond_it2.4
p_mcangle_it1.7
p_mcbond_it1
p_multtor_nbd0.26
p_xyhbond_nbd0.25
p_singtor_nbd0.22
RMS Deviations
KeyRefinement Restraint Deviation
p_transverse_tor30
p_staggered_tor21
p_planar_tor4
p_scangle_it3.5
p_scbond_it2.4
p_mcangle_it1.7
p_mcbond_it1
p_multtor_nbd0.26
p_xyhbond_nbd0.25
p_singtor_nbd0.22
p_chiral_restr0.19
p_planar_d0.049
p_angle_d0.042
p_plane_restr0.028
p_bond_d0.02
p_angle_deg
p_hb_or_metal_coord
p_xhyhbond_nbd
p_orthonormal_tor
p_special_tor
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2298
Nucleic Acid Atoms
Solvent Atoms165
Heterogen Atoms40

Software

Software
Software NamePurpose
XENGENdata collection
XENGENdata reduction
PROFFTrefinement
XENGENdata scaling