1H6U

Internalin H: crystal structure of fused N-terminal domains.


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1D0BPDB ENTRY 1D0B

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1529310% PEG 8000, 0.1M TRIS PH 7.0, 0.2 M MGCL2. T=20C, PROTEIN CONC.=10 MG/ML
Crystal Properties
Matthews coefficientSolvent content
2.1742.8

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 57.481α = 90
b = 100.682β = 90
c = 119.931γ = 90
Symmetry
Space GroupI 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATERAXIS IV++OSMIC CONFOCAL MIRRORS2000-07-03MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU RU300

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
11.66195.30.03322237671
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)
11.61.6691.20.1627.421.9

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 1D0B1.876.730497165298.40.170.1670.217RANDOM
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
r_scangle_it5.47
r_scbond_it3.544
r_mcangle_it2.188
r_angle_other_deg1.989
r_mcbond_it1.343
r_dihedral_angle_3_deg1.018
r_symmetry_hbond_refined0.752
r_nbd_refined0.225
r_symmetry_vdw_refined0.221
r_nbd_other0.213
RMS Deviations
KeyRefinement Restraint Deviation
r_scangle_it5.47
r_scbond_it3.544
r_mcangle_it2.188
r_angle_other_deg1.989
r_mcbond_it1.343
r_dihedral_angle_3_deg1.018
r_symmetry_hbond_refined0.752
r_nbd_refined0.225
r_symmetry_vdw_refined0.221
r_nbd_other0.213
r_xyhbond_nbd_refined0.18
r_symmetry_vdw_other0.163
r_chiral_restr0.141
r_bond_refined_d0.025
r_gen_planes_refined0.01
r_gen_planes_other0.003
r_bond_other_d0.001
r_angle_refined_deg
r_dihedral_angle_1_deg
r_dihedral_angle_2_deg
r_dihedral_angle_4_deg
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_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 Atoms2296
Nucleic Acid Atoms
Solvent Atoms403
Heterogen Atoms

Software

Software
Software NamePurpose
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling
AMoREphasing