6LP0

crystal structure of alpha-momorcharin in complex with AMP


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1F8Q 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP6.52980.2 M Magnesium Acetate, 20% PEG 8000, 0.1 M Sodium cacodylate, pH 6.5
Crystal Properties
Matthews coefficientSolvent content
1.9637.3

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 131.347α = 90
b = 131.347β = 90
c = 37.297γ = 120
Symmetry
Space GroupH 3

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 300 mm CCD2007-12-06MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 22-ID1.0APS22-ID

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)CC (Half)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
11.5195081.40.120.9694.72.729931
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.521.570.3460.8963.53

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-WorkR-FreeMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTFREE R-VALUE1F8Q1.51915.73429931154780.8120.2490.24610.29921.449
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]
-1.149-0.575-1.1493.729
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.041
r_dihedral_angle_4_deg26.008
r_dihedral_angle_3_deg14.023
r_dihedral_angle_1_deg6.415
r_lrange_it4.217
r_lrange_other4.125
r_scangle_it2.691
r_scangle_other2.69
r_scbond_it1.747
r_scbond_other1.746
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.041
r_dihedral_angle_4_deg26.008
r_dihedral_angle_3_deg14.023
r_dihedral_angle_1_deg6.415
r_lrange_it4.217
r_lrange_other4.125
r_scangle_it2.691
r_scangle_other2.69
r_scbond_it1.747
r_scbond_other1.746
r_angle_refined_deg1.663
r_mcangle_it1.632
r_mcangle_other1.632
r_angle_other_deg1.438
r_mcbond_it1.084
r_mcbond_other1.081
r_nbd_other0.316
r_symmetry_nbd_refined0.307
r_nbd_refined0.229
r_symmetry_xyhbond_nbd_refined0.194
r_symmetry_nbd_other0.19
r_nbtor_refined0.17
r_xyhbond_nbd_refined0.168
r_symmetry_nbtor_other0.081
r_chiral_restr0.08
r_bond_refined_d0.009
r_gen_planes_refined0.009
r_gen_planes_other0.002
r_bond_other_d0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1924
Nucleic Acid Atoms
Solvent Atoms202
Heterogen Atoms37

Software

Software
Software NamePurpose
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling
MOLREPphasing