X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3EXVHuman Adenovirus type 11 fiber knob

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP9293.1520% (w/v) PEG 8000, 0.1M CHES, 200mM NaCl, pH 9.0, VAPOR DIFFUSION, SITTING DROP, temperature 293.15K
Crystal Properties
Matthews coefficientSolvent content
2.4650.01

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 106.47α = 90
b = 106.47β = 90
c = 311.71γ = 120
Symmetry
Space GroupP 32 1 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray93.15PIXELPSI PILATUS 6M2007-11-11MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSLS BEAMLINE X06SA1SLSX06SA

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
11.847.499.10.078187138185386-3
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.81.994.4

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTHuman Adenovirus type 11 fiber knob1.847.417615617615692721000.189370.188030.21495RANDOM14.92
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]
0.030.010.03-0.04
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.416
r_dihedral_angle_4_deg11.835
r_dihedral_angle_3_deg9.937
r_dihedral_angle_1_deg5.929
r_angle_refined_deg0.926
r_scangle_it0.86
r_angle_other_deg0.748
r_scbond_it0.584
r_mcangle_it0.485
r_mcbond_it0.439
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.416
r_dihedral_angle_4_deg11.835
r_dihedral_angle_3_deg9.937
r_dihedral_angle_1_deg5.929
r_angle_refined_deg0.926
r_scangle_it0.86
r_angle_other_deg0.748
r_scbond_it0.584
r_mcangle_it0.485
r_mcbond_it0.439
r_nbd_other0.178
r_nbtor_refined0.17
r_nbd_refined0.167
r_symmetry_vdw_other0.163
r_symmetry_vdw_refined0.155
r_xyhbond_nbd_refined0.118
r_symmetry_hbond_refined0.08
r_nbtor_other0.079
r_chiral_restr0.057
r_mcbond_other0.039
r_bond_refined_d0.004
r_gen_planes_refined0.002
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms13904
Nucleic Acid Atoms
Solvent Atoms1803
Heterogen Atoms39

Software

Software
Software NamePurpose
MAR345dtbdata collection
PHASERphasing
REFMACrefinement
XDSdata reduction
XDSdata scaling