3EXW

Crystal structure of the human Adenovirus type 7 fiber knob


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, HANGING DROP7.6293.1523% w/v PEG 3350, 0.1M HEPES buffer, pH 7.6, VAPOR DIFFUSION, HANGING DROP, temperature 293.15K
Crystal Properties
Matthews coefficientSolvent content
2.0640.3

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 83.31α = 90
b = 88.05β = 90
c = 79.17γ = 90
Symmetry
Space GroupP 21 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray93.15CCDMARMOSAIC 225 mm CCD2006-10-24MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSLS BEAMLINE X06SA1SLSX06SA

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Sym 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
11.7579.0699.10.055.15943352966-3
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
1.751.8195.10.3641.344.6

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 knob1.7536.115943352966591699.080.195720.191920.22999RANDOM16.948
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]
-1.2-1.032.23
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.472
r_dihedral_angle_4_deg19.272
r_dihedral_angle_1_deg18.09
r_dihedral_angle_3_deg12.441
r_scangle_it2.365
r_scbond_it1.695
r_mcangle_it1.144
r_mcbond_it0.983
r_angle_refined_deg0.732
r_angle_other_deg0.651
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.472
r_dihedral_angle_4_deg19.272
r_dihedral_angle_1_deg18.09
r_dihedral_angle_3_deg12.441
r_scangle_it2.365
r_scbond_it1.695
r_mcangle_it1.144
r_mcbond_it0.983
r_angle_refined_deg0.732
r_angle_other_deg0.651
r_symmetry_vdw_other0.285
r_symmetry_vdw_refined0.271
r_nbd_other0.218
r_nbd_refined0.212
r_nbtor_refined0.181
r_xyhbond_nbd_refined0.178
r_mcbond_other0.173
r_symmetry_hbond_refined0.17
r_nbtor_other0.084
r_chiral_restr0.054
r_gen_planes_refined0.007
r_bond_refined_d0.006
r_bond_other_d0.003
r_gen_planes_other0.002
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms4636
Nucleic Acid Atoms
Solvent Atoms492
Heterogen Atoms

Software

Software
Software NamePurpose
MAR345dtbdata collection
PHASERphasing
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling