2RH1

High resolution crystal structure of human B2-adrenergic G protein-coupled receptor.


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1U19PDB entries 1U19, 2LZM
experimental modelPDB 2LZMPDB entries 1U19, 2LZM

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1LIPIDIC MESOPHASE6.7529330-35% v/v PEG 400, 0.1-0.2 M Na2SO4, 0.1 M Bis-tris propane pH 6.5-7.0, 5-7% 1,4-Butanediol, 8-10% Cholesterol, 52-50% Monoolein, pH 6.75, LIPIDIC MESOPHASE, temperature 293K
Crystal Properties
Matthews coefficientSolvent content
3.0759.98

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 106.318α = 90
b = 169.24β = 105.62
c = 40.154γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray78CCDMARMOSAIC 300 mm CCDmirrors2007-06-22MSINGLE WAVELENGTH
21CCDMARMOSAIC 300 mm CCDmirrors2007-07-18
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 23-ID-B1.03321APS23-ID-B
2SYNCHROTRONAPS BEAMLINE 23-ID-B1.03321APS23-ID-B

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
12.42099.20.1279.622670526506-363.908
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)
12.42.599.10.6782.2

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-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB entries 1U19, 2LZM2.419.952650626506131099.790.1980.1980.1960.232RANDOM63.912
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]
0.432.26-3.464.25
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.604
r_dihedral_angle_4_deg12.164
r_dihedral_angle_3_deg11.383
r_scangle_it5.849
r_scbond_it4.582
r_angle_other_deg4.099
r_dihedral_angle_1_deg3.876
r_mcangle_it2.767
r_mcbond_it2.352
r_angle_refined_deg1.5
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.604
r_dihedral_angle_4_deg12.164
r_dihedral_angle_3_deg11.383
r_scangle_it5.849
r_scbond_it4.582
r_angle_other_deg4.099
r_dihedral_angle_1_deg3.876
r_mcangle_it2.767
r_mcbond_it2.352
r_angle_refined_deg1.5
r_nbd_other0.194
r_symmetry_hbond_refined0.192
r_nbd_refined0.187
r_nbtor_refined0.18
r_xyhbond_nbd_refined0.164
r_symmetry_vdw_refined0.155
r_symmetry_vdw_other0.14
r_nbtor_other0.107
r_mcbond_other0.097
r_chiral_restr0.06
r_bond_refined_d0.013
r_gen_planes_refined0.001
r_gen_planes_other0.001
r_bond_other_d
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3543
Nucleic Acid Atoms
Solvent Atoms48
Heterogen Atoms213

Software

Software
Software NamePurpose
XSCALEdata scaling
PHASERphasing
REFMACrefinement
PDB_EXTRACTdata extraction
Blu-Icedata collection
XDSdata reduction
XDSdata scaling