3TLB

Microcin C7 self immunity protein MccF in complex aspartyl sulfamoyl adenosine


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3TLAPDB ENTRY 3TLA

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP7.528210% PEG 8000, 8% ethylene glycol, 0.1 M HEPES, pH 7.5, vapor diffusion, hanging drop, temperature 282K
Crystal Properties
Matthews coefficientSolvent content
238.4

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 54.431α = 90
b = 85.675β = 101.31
c = 72.892γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-rayCCDMARMOSAIC 300 mm CCD2010-02-22MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 21-ID-DAPS21-ID-D

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
11.55095.60.05811.2699681
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)
11.51.55850.2445.38860

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 3TLA1.5012599640497495.330.18070.17960.202RANDOM14.5943
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]
-0.29-0.271.21-1.03
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.262
r_dihedral_angle_4_deg15.233
r_dihedral_angle_3_deg10.705
r_dihedral_angle_1_deg5.312
r_scangle_it1.698
r_scbond_it1.011
r_angle_refined_deg0.986
r_angle_other_deg0.775
r_mcangle_it0.57
r_mcbond_it0.276
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.262
r_dihedral_angle_4_deg15.233
r_dihedral_angle_3_deg10.705
r_dihedral_angle_1_deg5.312
r_scangle_it1.698
r_scbond_it1.011
r_angle_refined_deg0.986
r_angle_other_deg0.775
r_mcangle_it0.57
r_mcbond_it0.276
r_chiral_restr0.067
r_bond_refined_d0.006
r_gen_planes_refined0.004
r_bond_other_d0.002
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms5261
Nucleic Acid Atoms
Solvent Atoms864
Heterogen Atoms62

Software

Software
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
REFMACrefinement
PDB_EXTRACTdata extraction