3JWU

Structure of rat neuronal nitric oxide synthase R349A mutant heme domain in complex with N1-{(3'R,4'S)-4'-[(6"-amino-4"-methylpyridin-2"-yl)methyl]pyrrolidin-3'-yl}-N2-(3'-fluorophenethyl)ethane-1,2-diamine tetrahydrochloride


X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 5.8
Temperature 278.0
Details PEG3350, MES, ammonium acetate, SDS, GSH, pH 5.8, VAPOR DIFFUSION, SITTING DROP, temperature 278K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 51.83 α = 90
b = 111.85 β = 90
c = 164.41 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 325 mm CCD mirrors 2007-01-21
Diffraction Radiation
Monochromator Protocol
graphite SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL9-2 1.000 SSRL BL9-2

Data Collection

Overall
Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot
1.93 50 97.5 0.04 0.04 -- 4.1 -- 71872 -- -3.0 34.82
High Resolution Shell
Resolution (High) Resolution (Low) Percent Possible (All) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All)
1.93 1.96 96.1 0.648 0.648 2.0 4.0 --

Refinement

Statistics
Structure Solution Method Refinement High Resolution Refinement Low Resolution Cut-off Sigma (I) Cut-off Sigma (F) Number of Reflections (All) Number of Reflections (Observed) Number of Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work R-Free R-Free Selection Details
FOURIER SYNTHESIS 1.93 38.01 -- -- -- 68222 3607 97.19 -- 0.18171 0.18043 0.20507 RANDOM
High Resolution Shell
Refinement method Shell Resolution (High) Shell Resolution (Low) # of Reflections (Observed) # of Reflections (R-Free) # of Reflections (R-Work) R-Factor (R-Work) R-Factor (R-Free) R-Factor (R-Free Error) Percent Reflections (Observed)
X Ray Diffraction 1.93 1.97 -- 263 4608 0.286 0.318 -- 91.25
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 49.149
Anisotropic B[1][1] 2.31
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.07
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -3.38
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_2_deg 34.549
r_bond_refined_d 0.012
r_scbond_it 1.908
r_chiral_restr 0.09
r_gen_planes_refined 0.006
r_dihedral_angle_3_deg 14.335
r_mcangle_it 1.154
r_angle_refined_deg 1.343
r_mcbond_it 0.631
r_scangle_it 3.021
r_dihedral_angle_1_deg 5.631
r_dihedral_angle_4_deg 18.851
Coordinate Error
Parameter Value
Luzzati Sigma A (Observed) 0.182
Luzzati ESD (R-Free Set) 0.18
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6652
Nucleic Acid Atoms 0
Heterogen Atoms 183
Solvent Atoms 391

Software

Software
Software Name Purpose
REFMAC refinement version: 5.5.0089
CNS refinement
Blu-Ice data collection version: Ice
HKL-2000 data reduction
SCALEPACK data scaling
CNS phasing