1PPJ

Bovine cytochrome bc1 complex with stigmatellin and antimycin


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1BE3PDB ENTRIES 1BE3 2BCC
experimental modelPDB 2BCCPDB ENTRIES 1BE3 2BCC

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
16.7277PEG-3350, JEFFAMINE, GLYCEROL, CACODYLATE, HEXYLGLUCOSIDE , pH 6.7, VAPOR DIFFUSION, SITTING DROP, temperature 277K, pH 6.70
Crystal Properties
Matthews coefficientSolvent content
2.7454.7

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 128.53α = 90
b = 168.748β = 90
c = 231.533γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATEMARRESEARCHSI(311)MONOCHROMATOR (HORIZONTAL)2002-06-26MSINGLE WAVELENGTH
21x-ray100CCDADSC QUANTUM 4TOROIDAL FUCUSING MIRROR2002-06-30MSINGLE WAVELENGTH
31x-ray100CCDADSC QUANTUM 210FLAT MIRROR(VERTICAL)2002-10-06MSINGLE WAVELENGTH
41x-ray100CCDADSC QUANTUM 2102002-10-15MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSSRL BEAMLINE BL9-1SSRLBL9-1
2SYNCHROTRONALS BEAMLINE 5.0.1ALS5.0.1
3SYNCHROTRONALS BEAMLINE 5.0.2ALS5.0.2
4SYNCHROTRONALS BEAMLINE 8.2.2ALS8.2.2

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
1,2,3,42.125098.10.14918.6895.63285923-333.5
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)
1,2,3,42.12.1594.30.8792.819

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 ENTRIES 1BE3 2BCC2.193.532884482850601418197.70.2240.2240.26RANDOM50.2
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]
12.34-3.71-8.63
RMS Deviations
KeyRefinement Restraint Deviation
c_dihedral_angle_d21.8
c_scangle_it4.3
c_scbond_it2.83
c_mcangle_it2.7
c_mcbond_it1.62
c_angle_deg1.4
c_improper_angle_d0.94
c_bond_d0.006
c_bond_d_na
c_bond_d_prot
RMS Deviations
KeyRefinement Restraint Deviation
c_dihedral_angle_d21.8
c_scangle_it4.3
c_scbond_it2.83
c_mcangle_it2.7
c_mcbond_it1.62
c_angle_deg1.4
c_improper_angle_d0.94
c_bond_d0.006
c_bond_d_na
c_bond_d_prot
c_angle_d
c_angle_d_na
c_angle_d_prot
c_angle_deg_na
c_angle_deg_prot
c_dihedral_angle_d_na
c_dihedral_angle_d_prot
c_improper_angle_d_na
c_improper_angle_d_prot
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms31181
Nucleic Acid Atoms
Solvent Atoms1370
Heterogen Atoms998

Software

Software
Software NamePurpose
CNSrefinement
DENZOdata reduction
SCALEPACKdata scaling
AMoREphasing