X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1N6IPDB ENTRY 1N6I

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP4.529125% P3350, 0.1M NaOAc, pH 4.5, vapor diffusion, sitting drop, temperature 291K
Crystal Properties
Matthews coefficientSolvent content
2.137.04

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 41.302α = 90
b = 78.37β = 90
c = 95.501γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 42006-05-07MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONCHESS BEAMLINE F1CHESSF1

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
11.5501000.0589.2750161
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)
1.51.551000.6796.7

Refinement

Statistics
Diffraction IDStructure Solution MethodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTPDB ENTRY 1N6I1.553045443287599.1840.2640.26220.2936thin shells15.121
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]
-0.3750.517-0.143
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.633
r_dihedral_angle_4_deg14.429
r_dihedral_angle_3_deg12.151
r_dihedral_angle_1_deg6.085
r_scangle_it3.232
r_mcangle_it2.907
r_scbond_it2.466
r_mcbond_it2.432
r_angle_refined_deg1.488
r_angle_other_deg1.139
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.633
r_dihedral_angle_4_deg14.429
r_dihedral_angle_3_deg12.151
r_dihedral_angle_1_deg6.085
r_scangle_it3.232
r_mcangle_it2.907
r_scbond_it2.466
r_mcbond_it2.432
r_angle_refined_deg1.488
r_angle_other_deg1.139
r_mcbond_other0.687
r_symmetry_vdw_other0.269
r_symmetry_vdw_refined0.229
r_nbd_refined0.21
r_nbd_other0.194
r_nbtor_refined0.18
r_xyhbond_nbd_refined0.131
r_chiral_restr0.108
r_symmetry_hbond_refined0.106
r_nbtor_other0.086
r_bond_refined_d0.018
r_gen_planes_refined0.005
r_bond_other_d0.003
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2568
Nucleic Acid Atoms
Solvent Atoms124
Heterogen Atoms72

Software

Software
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
PHASERphasing
REFMACrefinement
PDB_EXTRACTdata extraction
ARP/wARPmodel building
MolProbitymodel building