X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2ICQPDB ENTRY 2ICQ

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1liquide diffusion in gel phase10.5290SOLUTION A (0.1 ML): 50MM TRIS BUFFER, SATURATED WITH ACID URIC, 10% PEG 8000, PH 10.5, 0.5 MM AGAROSE IN CAPPILARY (HALF FILLING), SET AS A GEL (BY COOLING FROM 323 K TO ROOM TEMP). SOLUTION B (0.1 ML): 20 MG/ML PROTEIN, SAME BUFFER, SET IN CONTACT WITHIN THE CAPILLARY WITH SOL.A. CRYSTALS DEVELOP IN THE GEL PHASE BY SLOW DIFFUSION. ALL SOLUTION DEGASED, CRYSTALLIZATIONS UNDER ARGON ATMOSPHERE (ANAEROBIC CONDITIONS), liquide diffusion in gel phase, temperature 290K
Crystal Properties
Matthews coefficientSolvent content
2.957.56

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 79.853α = 90
b = 96.29β = 90
c = 105.737γ = 90
Symmetry
Space GroupI 2 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray291CCDADSC QUANTUM 315rBENT MIRROR2008-07-12MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE BM30A0.979ESRFBM30A

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
11.526.799.40.06818.14.66492124
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)
11.51.5586.170.2323.93.96068

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 DIFFRACTIONFOURIER SYNTHESISFREE RPDB ENTRY 2ICQ1.510426476060335388399.40.23020.22770.22010.2492RANDOM
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]
Coordinate Error
Structure Solution MethodRefinement High ResolutionRefinement Low Resolution
923142625
RMS Deviations
KeyRefinement Restraint Deviation
s_angle_d0.076
s_non_zero_chiral_vol0.057
s_zero_chiral_vol0.05
s_anti_bump_dis_restr0.049
s_bond_d0.03
s_from_restr_planes0.027
s_similar_dist
s_rigid_bond_adp_cmpnt
s_similar_adp_cmpnt
s_approx_iso_adps
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2362
Nucleic Acid Atoms
Solvent Atoms250
Heterogen Atoms13

Software

Software
Software NamePurpose
ADSCdata collection
SHELXL-97refinement
MOSFLMdata reduction
SCALAdata scaling
TRUNCATEdata scaling