1RQA | pdb_00001rqa

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

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	Other		undeposited structure

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1		7	298	10 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 coefficient	Solvent content
2.51	50.98

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 95.3	α = 90
b = 97.8	β = 90
c = 66.8	γ = 90

Symmetry
Space Group	P 21 21 2

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	298	AREA DETECTOR	SDMS		1998-09-23	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	ROTATING ANODE	RIGAKU RU200	1.5418

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge 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	2.11	55.048	98	0.085	9.6	6.6		42912

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
	2.11	2.27	90.5		0.231	2	2.6

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	Number Reflections (All)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (Observed)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	betaW37E deoxyhemoglobin to be deposited in PDB	2.11	10	32235	32235	3620	84.36	0.19242	0.18805	0.19	0.23107	0.23	matched 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]
-0.14			0.53		-0.39

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_3_deg	18.21
r_scangle_it	4.048
r_dihedral_angle_1_deg	3.715
r_scbond_it	2.511
r_angle_refined_deg	2.332
r_mcangle_it	1.63
r_mcbond_it	0.873
r_angle_other_deg	0.833
r_xyhbond_nbd_other	0.561
r_nbd_refined	0.25
r_xyhbond_nbd_refined	0.244
r_symmetry_vdw_refined	0.209
r_symmetry_hbond_refined	0.202
r_nbd_other	0.198
r_symmetry_vdw_other	0.182
r_chiral_restr	0.166
r_bond_refined_d	0.023
r_gen_planes_refined	0.007
r_gen_planes_other	0.005
r_bond_other_d	0.001
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 Atoms	Number
Protein Atoms	4362
Nucleic Acid Atoms
Solvent Atoms	138
Heterogen Atoms	180

Software

Software
Software Name	Purpose
REFMAC	refinement
SDMS	data reduction
SDMS	data scaling
X-PLOR	phasing