3KBC

Crystal structure of GltPh K55C-A364C mutant crosslinked with divalent mercury


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2NWXPDB entry 2NWX

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP5277PEG MME 350, CaCl2, MES, pH 5.0, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties
Matthews coefficientSolvent content
4.4672.42

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 113.142α = 90
b = 206.78β = 90
c = 205.971γ = 90
Symmetry
Space GroupC 2 2 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 3152008-10-16MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONNSLS BEAMLINE X251.000NSLSX25

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
13.54097.90.1186.18.33057029928109.7
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
13.53.6392.26.42776

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 2NWX3.51122986428969147397.220.2670.2670.27RANDOM100.882
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]
5.252.99-8.24
RMS Deviations
KeyRefinement Restraint Deviation
r_angle_refined_deg1.288
r_dihedral_angle_2_deg0.881
r_dihedral_angle_3_deg0.752
r_dihedral_angle_4_deg0.549
r_scangle_it0.514
r_scbond_it0.282
r_mcangle_it0.226
r_mcbond_it0.118
r_dihedral_angle_1_deg0.097
r_chiral_restr0.081
RMS Deviations
KeyRefinement Restraint Deviation
r_angle_refined_deg1.288
r_dihedral_angle_2_deg0.881
r_dihedral_angle_3_deg0.752
r_dihedral_angle_4_deg0.549
r_scangle_it0.514
r_scbond_it0.282
r_mcangle_it0.226
r_mcbond_it0.118
r_dihedral_angle_1_deg0.097
r_chiral_restr0.081
r_bond_refined_d0.01
r_gen_planes_refined0.003
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms9060
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms36

Software

Software
Software NamePurpose
REFMACrefinement
PDB_EXTRACTdata extraction
CBASSdata collection
DENZOdata reduction
SCALEPACKdata scaling
PHASERphasing