1RQA

Crystallographic Analysis of the Interaction of Nitric Oxide with Quaternary-T Human Hemoglobin. Beta W73E hemoglobin exposed to NO under anaerobic conditions


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelOtherundeposited structure

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1729810 mg/mL human hemoglobin, 10 mM potassium phosphate, 100 mM potassium chloride, 10-12% PEG 6000, 3mM sodium dithionite (under anaerobic conditions), pH 7.0, BATCH METHOD, temperature 298K
Crystal Properties
Matthews coefficientSolvent content
2.5150.98

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 95.3α = 90
b = 97.8β = 90
c = 66.8γ = 90
Symmetry
Space GroupP 21 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray298AREA DETECTORSDMS1998-09-23MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU RU2001.5418

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
12.1155.048980.0859.66.642912
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)
2.112.2790.50.23122.6

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 (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTbetaW37E deoxyhemoglobin to be deposited in PDB2.11103223532235362084.360.192420.188050.23107matched to betaW37E deoxyhemoglobin data (to be deposited)24.375
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]
-0.140.53-0.39
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_3_deg18.21
r_scangle_it4.048
r_dihedral_angle_1_deg3.715
r_scbond_it2.511
r_angle_refined_deg2.332
r_mcangle_it1.63
r_mcbond_it0.873
r_angle_other_deg0.833
r_xyhbond_nbd_other0.561
r_nbd_refined0.25
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_3_deg18.21
r_scangle_it4.048
r_dihedral_angle_1_deg3.715
r_scbond_it2.511
r_angle_refined_deg2.332
r_mcangle_it1.63
r_mcbond_it0.873
r_angle_other_deg0.833
r_xyhbond_nbd_other0.561
r_nbd_refined0.25
r_xyhbond_nbd_refined0.244
r_symmetry_vdw_refined0.209
r_symmetry_hbond_refined0.202
r_nbd_other0.198
r_symmetry_vdw_other0.182
r_chiral_restr0.166
r_bond_refined_d0.023
r_gen_planes_refined0.007
r_gen_planes_other0.005
r_bond_other_d0.001
r_dihedral_angle_2_deg
r_dihedral_angle_4_deg
r_nbtor_refined
r_nbtor_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_hbond_other
r_mcbond_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms4362
Nucleic Acid Atoms
Solvent Atoms138
Heterogen Atoms180

Software

Software
Software NamePurpose
REFMACrefinement
SDMSdata reduction
SDMSdata scaling
X-PLORphasing