4AVZ

Tailspike protein mutant E372Q of E. coli bacteriophage HK620


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2VJIPDB ENTRY 2VJI

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
18.5PROTEIN WAS CRYSTALLISED FROM 3.5 M SODIUMFORMATE, 0.1 M TRIS-HCL, PH 8.5.
Crystal Properties
Matthews coefficientSolvent content
2.1743.38

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 74.271α = 90
b = 74.271β = 90
c = 174.665γ = 120
Symmetry
Space GroupP 3 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 225 mm CCDMIRRORS2012-02-29MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONBESSY BEAMLINE 14.1BESSY14.1

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
11.825099.70.0619.93.950917-316.3
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)
11.821.9399.20.374.55.2

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 2VJI1.8236.12850915254699.7340.1690.16720.1951RANDOM14.18
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]
0.9230.4620.923-1.385
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.444
r_dihedral_angle_4_deg17.614
r_dihedral_angle_3_deg11.775
r_dihedral_angle_1_deg7.579
r_scangle_it3.697
r_scbond_it2.344
r_angle_refined_deg1.8
r_mcangle_it1.341
r_angle_other_deg1.006
r_mcbond_it0.879
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.444
r_dihedral_angle_4_deg17.614
r_dihedral_angle_3_deg11.775
r_dihedral_angle_1_deg7.579
r_scangle_it3.697
r_scbond_it2.344
r_angle_refined_deg1.8
r_mcangle_it1.341
r_angle_other_deg1.006
r_mcbond_it0.879
r_nbd_refined0.242
r_mcbond_other0.193
r_nbd_other0.186
r_nbtor_refined0.186
r_xyhbond_nbd_refined0.179
r_chiral_restr0.118
r_bond_refined_d0.019
r_gen_planes_refined0.01
r_bond_other_d0.002
r_gen_planes_other0.002
r_nbtor_other
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_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 Atoms4539
Nucleic Acid Atoms
Solvent Atoms337
Heterogen Atoms8

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
XDSdata scaling
PHASERphasing