X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1TM3PDB entry 1tm3

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP4.6277sodium citrate, isopropanol, PEG 750 monomethyl ether, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties
Matthews coefficientSolvent content
3.463.2

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 94.153α = 90
b = 94.153β = 90
c = 186.421γ = 120
Symmetry
Space GroupP 65 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 42002-01-10MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONALS BEAMLINE 5.0.11.0ALS5.0.1

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
11.5981.6599.80.081189.86611366113-3-3

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Cut-off Sigma (I)Cut-off Sigma (F)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB entry 1tm31.5981.65-3-36611262800331299.810.156120.156120.155120.17503inherited from 1tm318.203
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]
0.320.160.32-0.48
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg5.766
r_scangle_it4.451
r_scbond_it2.723
r_angle_refined_deg1.815
r_mcangle_it1.569
r_mcbond_it0.94
r_symmetry_vdw_refined0.433
r_nbd_refined0.215
r_symmetry_hbond_refined0.17
r_xyhbond_nbd_refined0.154
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg5.766
r_scangle_it4.451
r_scbond_it2.723
r_angle_refined_deg1.815
r_mcangle_it1.569
r_mcbond_it0.94
r_symmetry_vdw_refined0.433
r_nbd_refined0.215
r_symmetry_hbond_refined0.17
r_xyhbond_nbd_refined0.154
r_chiral_restr0.135
r_metal_ion_refined0.056
r_bond_refined_d0.02
r_gen_planes_refined0.008
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2566
Nucleic Acid Atoms
Solvent Atoms462
Heterogen Atoms88

Software

Software
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
CCP4data scaling
TRUNCATEdata scaling
EPMRphasing