3P6B

The crystal structure of CelK CBM4 from Clostridium thermocellum


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3K4ZPDB ENTRY 3K4Z

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP8.52931.5 M ammonium sulfate, 0.5 M Tris, 12% glycerol, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties
Matthews coefficientSolvent content
3.1460.84

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 65.949α = 90
b = 65.949β = 90
c = 272.436γ = 90
Symmetry
Space GroupP 41 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDBruker Platinum 135Helios2009-12-02MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODEBRUKER AXS MICROSTAR1.5418

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (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
1238.4899.86.54207041971
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)
122.199.50.53962.083.955564

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)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 3K4Z238.4839497210799.150.214930.211790.27354RANDOM24.973
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]
0.280.28-0.55
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.318
r_dihedral_angle_4_deg18.255
r_dihedral_angle_3_deg13.965
r_dihedral_angle_1_deg7.134
r_scangle_it4.204
r_scbond_it2.875
r_angle_refined_deg1.875
r_mcangle_it1.717
r_mcbond_it1.026
r_angle_other_deg0.935
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.318
r_dihedral_angle_4_deg18.255
r_dihedral_angle_3_deg13.965
r_dihedral_angle_1_deg7.134
r_scangle_it4.204
r_scbond_it2.875
r_angle_refined_deg1.875
r_mcangle_it1.717
r_mcbond_it1.026
r_angle_other_deg0.935
r_mcbond_other0.307
r_chiral_restr0.114
r_bond_refined_d0.021
r_gen_planes_refined0.009
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3008
Nucleic Acid Atoms
Solvent Atoms346
Heterogen Atoms71

Software

Software
Software NamePurpose
PROTEUM PLUSdata collection
MOLREPphasing
REFMACrefinement
SAINTdata reduction
PROTEUM PLUSdata scaling