1N4O

Crystal structure of the Class A beta-lactamase L2 from Stenotrophomonas maltophilia


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1BZAPDB ENTRY 1BZA

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP6.5291ammonium sulfate 1.5M, sodium cacodylate 0.1M, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties
Matthews coefficientSolvent content
3.5565.05

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 135.503α = 90
b = 135.503β = 90
c = 94.856γ = 90
Symmetry
Space GroupP 41 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray283IMAGE PLATEMARRESEARCH2001-05-25MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONLURE BEAMLINE DW320.9485LUREDW32

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
11.853099.20.06422.76.1750482.525.4
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)
1.851.9595.20.2862.65.510357

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-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB ENTRY 1BZA1.853070264471999.10.1640.1550.1470.164RANDOM17.3
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]
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg16.057
r_dihedral_angle_1_deg4.497
r_scangle_it4.399
r_mcangle_it3.092
r_scbond_it2.804
r_mcbond_it1.926
r_angle_refined_deg1.753
r_nbd_refined0.25
r_chiral_restr0.144
r_xyhbond_nbd_refined0.142
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg16.057
r_dihedral_angle_1_deg4.497
r_scangle_it4.399
r_mcangle_it3.092
r_scbond_it2.804
r_mcbond_it1.926
r_angle_refined_deg1.753
r_nbd_refined0.25
r_chiral_restr0.144
r_xyhbond_nbd_refined0.142
r_symmetry_vdw_refined0.14
r_symmetry_hbond_refined0.082
r_bond_refined_d0.022
r_gen_planes_refined0.008
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms4049
Nucleic Acid Atoms
Solvent Atoms315
Heterogen Atoms20

Software

Software
Software NamePurpose
MOSFLMdata reduction
SCALAdata scaling
AMoREphasing
REFMACrefinement
CCP4data scaling