2OFR

1.00 A Crystal Structure Of V36A/D129A/L130A Mutant of Nitrophorin 4 From Rhodnius Prolixus Complexed With Nitric Oxide at pH 5.6


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP5.6300ammonium phosphate, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 300K
Crystal Properties
Matthews coefficientSolvent content
1.9637.21

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 70.191α = 90
b = 42.637β = 94.12
c = 52.975γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 42005-02-01MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 14-BM-D0.9APS14-BM-D

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)R Sym 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
1152.8594.10.10.137479668
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.0490.10.390.395.334

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 DIFFRACTIONFOURIER SYNTHESISTHROUGHOUT1SXX19.4775093402294.070.1270.125860.14795RANDOM7.202
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]
-0.030.03-0.170.2
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.393
r_dihedral_angle_3_deg12.819
r_dihedral_angle_4_deg12.353
r_sphericity_free10.506
r_dihedral_angle_1_deg7.747
r_sphericity_bonded3.96
r_scangle_it3.953
r_scbond_it3.223
r_mcangle_it2.379
r_mcbond_it1.999
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.393
r_dihedral_angle_3_deg12.819
r_dihedral_angle_4_deg12.353
r_sphericity_free10.506
r_dihedral_angle_1_deg7.747
r_sphericity_bonded3.96
r_scangle_it3.953
r_scbond_it3.223
r_mcangle_it2.379
r_mcbond_it1.999
r_angle_refined_deg1.983
r_rigid_bond_restr1.507
r_angle_other_deg1.13
r_mcbond_other0.794
r_nbd_refined0.468
r_xyhbond_nbd_refined0.269
r_metal_ion_refined0.252
r_nbd_other0.24
r_symmetry_vdw_other0.215
r_symmetry_hbond_refined0.209
r_nbtor_refined0.191
r_symmetry_vdw_refined0.157
r_chiral_restr0.116
r_nbtor_other0.093
r_bond_refined_d0.02
r_gen_planes_refined0.012
r_gen_planes_other0.004
r_bond_other_d0.003
r_xyhbond_nbd_other
r_metal_ion_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1793
Nucleic Acid Atoms
Solvent Atoms233
Heterogen Atoms50

Software

Software
Software NamePurpose
REFMACrefinement
CrystalCleardata scaling