2HQE

Crystal structure of human P100 Tudor domain: Large fragment


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2HQXPDB ENTRY 2HQX

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP4.22912 micor liter drops containing equal volumes of protein solution (10.0 mg/ml) and precipitate solution (20% PEG 8000, 100.0 MM Phosphate, 0.1M Hepes), pH 4.2, VAPOR DIFFUSION, SITTING DROP, temperature 291K
Crystal Properties
Matthews coefficientSolvent content
1.9938.1

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 49.931α = 90
b = 93.413β = 90
c = 95.279γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 300 mm CCDROSENBAUM2006-06-16MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 22-ID0.9790APS22-ID

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
11.84489.10.07812.78.438197291022
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)
1.81.861000.81612.12.21624

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 (All)R-Factor (Observed)R-Work (Depositor)R-Work (DCC)R-Free (Depositor)R-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB ENTRY 2HQX244.24291022910217011000.234270.234270.233380.230.24919RANDOM28.325
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]
-0.650.84-0.19
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.123
r_dihedral_angle_3_deg13.11
r_dihedral_angle_4_deg10.898
r_dihedral_angle_1_deg5.386
r_mcangle_it1.837
r_scangle_it1.728
r_mcbond_it1.159
r_scbond_it1.128
r_angle_refined_deg1.08
r_nbtor_refined0.319
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2435
Nucleic Acid Atoms
Solvent Atoms156
Heterogen Atoms

Software

Software
Software NamePurpose
SCA2STRUCTUREmodel building
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling
PHASERphasing