2NWC

A 3.02 angstrom crystal structure of wild-type apo GroEL in a monoclinic space group


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1KP8PDB ENTRY 1kp8

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION82770.1 M imidazole, 35% MPD, 0.2 M MgCl2, pH 8.0, VAPOR DIFFUSION, temperature 277K
Crystal Properties
Matthews coefficientSolvent content
3.2361.95

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 136.423α = 90
b = 262.254β = 99.83
c = 147.074γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 3152006-04-16MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONALS BEAMLINE 5.0.20.97ALS5.0.2

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
13.025099.70.0879.83.8202060202060
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)
3.023.1398.90.7571.023.620078

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 (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB ENTRY 1kp83.02301980541880121004299.720.228410.22660.26269RANDOM70.399
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]
-1.462.6-3.35.65
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.52
r_dihedral_angle_3_deg17.461
r_dihedral_angle_4_deg14.941
r_dihedral_angle_1_deg4.479
r_angle_refined_deg0.971
r_scangle_it0.733
r_scbond_it0.411
r_mcangle_it0.326
r_nbtor_refined0.288
r_symmetry_vdw_refined0.213
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.52
r_dihedral_angle_3_deg17.461
r_dihedral_angle_4_deg14.941
r_dihedral_angle_1_deg4.479
r_angle_refined_deg0.971
r_scangle_it0.733
r_scbond_it0.411
r_mcangle_it0.326
r_nbtor_refined0.288
r_symmetry_vdw_refined0.213
r_symmetry_hbond_refined0.195
r_mcbond_it0.194
r_nbd_refined0.184
r_xyhbond_nbd_refined0.111
r_chiral_restr0.066
r_bond_refined_d0.006
r_gen_planes_refined0.002
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms53970
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms

Software

Software
Software NamePurpose
REFMACrefinement
HKL-2000data collection
HKL-2000data reduction
HKL-2000data scaling
PHASERphasing