1NX8

Structure of carbapenem synthase (CarC) complexed with N-acetyl proline


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1NX4 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP8.5292PEG 8000, ammonium acetate, isopropanol, Tris, iron sulphate, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 292K
Crystal Properties
Matthews coefficientSolvent content
2.7254.35

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 80.443α = 90
b = 164.082β = 90
c = 146.33γ = 90
Symmetry
Space GroupC 2 2 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 4mirrors2002-01-30MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSRS BEAMLINE PX14.20.9780SRSPX14.2

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
12.324.885970.0647.51574424162942.2
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)
12.32.3698.60.2353.2

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 (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT1NX42.381.654162939546208295.990.229910.229910.227510.2751RANDOM22.561
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]
1.780.49-2.27
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg17.968
r_dihedral_angle_1_deg4.81
r_scangle_it2.614
r_angle_refined_deg1.73
r_scbond_it1.686
r_mcangle_it0.988
r_mcbond_it0.556
r_metal_ion_refined0.205
r_symmetry_hbond_refined0.147
r_xyhbond_nbd_refined0.139
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg17.968
r_dihedral_angle_1_deg4.81
r_scangle_it2.614
r_angle_refined_deg1.73
r_scbond_it1.686
r_mcangle_it0.988
r_mcbond_it0.556
r_metal_ion_refined0.205
r_symmetry_hbond_refined0.147
r_xyhbond_nbd_refined0.139
r_chiral_restr0.12
r_nbd_refined0.115
r_symmetry_vdw_refined0.114
r_bond_refined_d0.014
r_gen_planes_refined0.008
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms6063
Nucleic Acid Atoms
Solvent Atoms232
Heterogen Atoms55

Software

Software
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
CCP4data scaling
AMoREphasing