1NNS

L-asparaginase of E. coli in C2 space group and 1.95 A resolution


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3ECAPDB ENTRY 3ECA

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP6291PEG 3350, MES, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties
Matthews coefficientSolvent content
2.1442.05

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 76.296α = 90
b = 134.617β = 110.51
c = 64.867γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray298IMAGE PLATEMARRESEARCHcyllindrical mirror and triangular bent single crystal monochromator.MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONLNLS BEAMLINE D03B-MX11.38LNLSD03B-MX1

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
11.951391.80.0471.5540782
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)
11.9520.3252.4

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 3ECA1.9512.9738737204591.830.131760.129690.17125RANDOM18.58
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]
0.02-0.01-0.040.01
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg40.327
r_dihedral_angle_3_deg17.165
r_dihedral_angle_4_deg13.248
r_dihedral_angle_1_deg5.796
r_scangle_it5.536
r_scbond_it3.328
r_angle_refined_deg2.097
r_mcangle_it1.87
r_mcbond_it1.059
r_symmetry_hbond_refined0.368
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg40.327
r_dihedral_angle_3_deg17.165
r_dihedral_angle_4_deg13.248
r_dihedral_angle_1_deg5.796
r_scangle_it5.536
r_scbond_it3.328
r_angle_refined_deg2.097
r_mcangle_it1.87
r_mcbond_it1.059
r_symmetry_hbond_refined0.368
r_symmetry_vdw_refined0.291
r_nbd_refined0.228
r_chiral_restr0.203
r_xyhbond_nbd_refined0.16
r_bond_refined_d0.027
r_gen_planes_refined0.01
r_bond_other_d
r_angle_other_deg
r_gen_planes_other
r_nbd_other
r_nbtor_other
r_xyhbond_nbd_other
r_symmetry_vdw_other
r_symmetry_hbond_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms4862
Nucleic Acid Atoms
Solvent Atoms329
Heterogen Atoms18

Software

Software
Software NamePurpose
MAR345data collection
SCALEPACKdata scaling
AMoREphasing
REFMACrefinement