3SJL

Crystal Structure of the P107S-MauG/pre-Methylamine Dehydrogenase Complex


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3L4M 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP6.4293Drops contained 1uL protein with 3uL reservoir solution. Protein solution: 100uM P107S-MauG and 50uM preMADH in 10mM potassium phosphate pH 7.5. Reservoir solution contained: 22% w/v PEG 8000, 0.1M sodium acetate, 0.1M MES pH 6.4., VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties
Matthews coefficientSolvent content
2.3647.98

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 55.606α = 67.05
b = 89.001β = 79.51
c = 104.812γ = 79.72
Symmetry
Space GroupP 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 300 mm CCDBiomorph mirrors (Kirkpatrick-Baez configuration)2011-03-30MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 23-ID-B1.03320APS23-ID-B

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
11.635092.50.05124.23.7225455208546-3
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)
11.631.6658.60.2922.92.611312

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 REPLACEMENTTHROUGHOUT3L4M1.6329.392143461980771046892.410.143860.141970.17952RANDOM22.234
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]
-0.110.08-0.01-0.020.060.06
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.136
r_dihedral_angle_4_deg16.833
r_dihedral_angle_3_deg13.793
r_dihedral_angle_1_deg6.545
r_scangle_it4.704
r_scbond_it3.174
r_angle_refined_deg2.354
r_mcangle_it2.079
r_mcbond_it1.363
r_chiral_restr0.23
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.136
r_dihedral_angle_4_deg16.833
r_dihedral_angle_3_deg13.793
r_dihedral_angle_1_deg6.545
r_scangle_it4.704
r_scbond_it3.174
r_angle_refined_deg2.354
r_mcangle_it2.079
r_mcbond_it1.363
r_chiral_restr0.23
r_bond_refined_d0.028
r_gen_planes_refined0.014
r_bond_other_d
r_angle_other_deg
r_gen_planes_other
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms13106
Nucleic Acid Atoms
Solvent Atoms1966
Heterogen Atoms223

Software

Software
Software NamePurpose
Blu-Icedata collection
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling
REFMACphasing