X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1HMPPDB ENTRY 1HMP

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
16.1100 MM SODIUM CACODYLATE PH 6.1, 200 MM CALCIUM ACETATE, 34% PEG 300
Crystal Properties
Matthews coefficientSolvent content
2.856.4

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 139.232α = 90
b = 139.232β = 90
c = 52.132γ = 120
Symmetry
Space GroupP 3 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC CCDMIRROR2006-07-14MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID29ESRFID29

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
11.739.41000.119.410.8639182
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)
11.71.791000.464.211

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 DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB ENTRY 1HMP1.739.446066432361000.1840.1820.215RANDOM20.23
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]
-0.18-0.09-0.180.28
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg30.199
r_dihedral_angle_4_deg15.484
r_dihedral_angle_3_deg12.994
r_dihedral_angle_1_deg5.454
r_scangle_it3.507
r_scbond_it2.354
r_mcangle_it1.538
r_angle_refined_deg1.398
r_mcbond_it0.926
r_nbtor_refined0.312
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg30.199
r_dihedral_angle_4_deg15.484
r_dihedral_angle_3_deg12.994
r_dihedral_angle_1_deg5.454
r_scangle_it3.507
r_scbond_it2.354
r_mcangle_it1.538
r_angle_refined_deg1.398
r_mcbond_it0.926
r_nbtor_refined0.312
r_nbd_refined0.241
r_symmetry_vdw_refined0.201
r_symmetry_hbond_refined0.151
r_xyhbond_nbd_refined0.135
r_chiral_restr0.101
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 Atoms3404
Nucleic Acid Atoms
Solvent Atoms303
Heterogen Atoms62

Software

Software
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling
MOLREPphasing