1SWX

Crystal structure of a human glycolipid transfer protein in apo-form


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP4.5293PEG 3350, potassium phosphate, pH 4.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties
Matthews coefficientSolvent content
2.1241.92

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 55.439α = 90
b = 35.259β = 115.82
c = 57.507γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATERIGAKU RAXIS HTCmirrors2003-06-25MSINGLE WAVELENGTH
21x-ray100CCDADSC QUANTUM 4MMAD
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU RUH3R1.5418
2SYNCHROTRONAPS BEAMLINE 19-BMAPS19-BM

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
1,21.655097.50.0634.62378223776
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)
1.651.680.341051

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (High)Resolution (Low)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 DIFFRACTIONMADTHROUGHOUT1.65202316722569120297.420.17530.175360.172490.22567RANDOM26.075
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]
-1.06-0.21-0.191.07
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg5.43
r_scangle_it4.468
r_scbond_it2.736
r_angle_refined_deg1.694
r_mcangle_it1.653
r_angle_other_deg1.627
r_mcbond_it0.903
r_symmetry_vdw_other0.304
r_nbd_other0.246
r_nbd_refined0.245
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg5.43
r_scangle_it4.468
r_scbond_it2.736
r_angle_refined_deg1.694
r_mcangle_it1.653
r_angle_other_deg1.627
r_mcbond_it0.903
r_symmetry_vdw_other0.304
r_nbd_other0.246
r_nbd_refined0.245
r_xyhbond_nbd_refined0.179
r_symmetry_hbond_refined0.164
r_nbtor_other0.111
r_chiral_restr0.083
r_symmetry_vdw_refined0.028
r_bond_refined_d0.016
r_gen_planes_refined0.007
r_bond_other_d0.002
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1605
Nucleic Acid Atoms
Solvent Atoms243
Heterogen Atoms6

Software

Software
Software NamePurpose
REFMACrefinement
CrystalCleardata reduction
SCALEPACKdata scaling
SOLVEphasing