3EG0

Crystal structure of the N114T mutant of ABL-SH3 domain


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1ABQPDB entry 1ABQ

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP72882M ammonium sulphate, 5% PEG300, 10% glycerol, and 0.1 M of buffer solution, pH 7, vapor diffusion, hanging drop, temperature 288K
Crystal Properties
Matthews coefficientSolvent content
2.346.62

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 49.754α = 90
b = 49.754β = 90
c = 45.126γ = 120
Symmetry
Space GroupP 32 1 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDBRUKER SMART 6000Montel optics2006-05-04MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODEBRUKER AXS MICROSTAR1.54

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (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
12.2543.07399.80.07340.07349.383146315337.169
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.252.3598.40.41680.41683.483.48368

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 1ABQ2.320294228099.90.2270.2210.283RANDOM17.919
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]
1.050.531.05-1.58
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.576
r_dihedral_angle_3_deg13.312
r_dihedral_angle_4_deg7.249
r_dihedral_angle_1_deg5.765
r_scangle_it2.152
r_angle_refined_deg1.818
r_scbond_it1.395
r_mcangle_it0.841
r_mcbond_it0.505
r_nbtor_refined0.306
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.576
r_dihedral_angle_3_deg13.312
r_dihedral_angle_4_deg7.249
r_dihedral_angle_1_deg5.765
r_scangle_it2.152
r_angle_refined_deg1.818
r_scbond_it1.395
r_mcangle_it0.841
r_mcbond_it0.505
r_nbtor_refined0.306
r_nbd_refined0.266
r_symmetry_vdw_refined0.183
r_xyhbond_nbd_refined0.178
r_symmetry_hbond_refined0.137
r_chiral_restr0.11
r_bond_refined_d0.01
r_gen_planes_refined0.005
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms438
Nucleic Acid Atoms
Solvent Atoms17
Heterogen Atoms6

Software

Software
Software NamePurpose
SAINTdata scaling
MOLREPphasing
REFMACrefinement
PDB_EXTRACTdata extraction
PROTEUM PLUSdata collection
SAINTdata reduction
SCALAdata scaling