1OTW

Crystal structure of PqqC in complex with PQQ and a putative H2O2


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1OTV 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP6.82981.4M ammonium sulphate, cacodylate , pH 6.8, VAPOR DIFFUSION, SITTING DROP, temperature 25K
Crystal Properties
Matthews coefficientSolvent content
2.5150.61

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 73.504α = 90
b = 118.419β = 90
c = 69.996γ = 90
Symmetry
Space GroupP 21 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 42003-01-01MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSSRL BEAMLINE BL9-10.978SSRLBL9-1

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
12.370.793.50.1628.23.1260112601137.1
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)
12.32.3689.10.4231.652.71779

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 REPLACEMENTTHROUGHOUT1OTV2.370.712601124745126693.40.2070.2070.2050.24829RANDOM43.702
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]
-2.75-4.657.4
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg6.296
r_mcangle_it2.159
r_scangle_it1.854
r_angle_refined_deg1.649
r_mcbond_it1.277
r_scbond_it1.176
r_angle_other_deg0.82
r_symmetry_vdw_other0.307
r_nbd_other0.255
r_nbd_refined0.238
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg6.296
r_mcangle_it2.159
r_scangle_it1.854
r_angle_refined_deg1.649
r_mcbond_it1.277
r_scbond_it1.176
r_angle_other_deg0.82
r_symmetry_vdw_other0.307
r_nbd_other0.255
r_nbd_refined0.238
r_symmetry_vdw_refined0.206
r_xyhbond_nbd_refined0.196
r_symmetry_hbond_refined0.196
r_nbtor_other0.092
r_chiral_restr0.083
r_bond_refined_d0.017
r_gen_planes_refined0.007
r_gen_planes_other0.004
r_bond_other_d0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms4154
Nucleic Acid Atoms
Solvent Atoms129
Heterogen Atoms52

Software

Software
Software NamePurpose
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling
SOLVEphasing