1IW1 | pdb_00001iw1

Crystal structure of a heme oxygenase (HmuO) from Corynebacterium diphtheriae complexed with heme in the ferrous state

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	5.8	303	ammonium sulfate, NaI, MES, pH 5.8, VAPOR DIFFUSION, SITTING DROP, temperature 303K

Crystal Properties
Matthews coefficient	Solvent content
2.49	50.29

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 53.865	α = 90
b = 62.837	β = 101.02
c = 107.208	γ = 90

Symmetry
Space Group	P 1 21 1

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	98	CCD	RIGAKU JUPITER 210	mirrors	2002-02-23	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SPRING-8 BEAMLINE BL45PX		SPring-8	BL45PX

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)	Redundancy	Number Reflections (All)	Number Reflections (Observed)	Observed Criterion Sigma (F)	Observed Criterion Sigma (I)	B (Isotropic) From Wilson Plot
1	1.5	44	99	0.064	0.064	4.8	2.3		110939

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)	Redundancy	Number Unique Reflections (All)
	1.5	1.58	98.7		0.306	0.306	2.2	2.3

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	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	MR	THROUGHOUT	1.5	12	66791	105106	5579	98.89	0.178	0.177	0.21	0.202	0.23	RANDOM	16.11

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]
-0.05		0.027	-0.01		0.026

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	11.668
r_scangle_it	4.211
r_sphericity_free	3.453
r_dihedral_angle_1_deg	3.064
r_scbond_it	2.724
r_sphericity_bonded	2.538
r_mcangle_it	1.902
r_angle_refined_deg	1.709
r_rigid_bond_restr	1.468
r_mcbond_it	1.179
r_angle_other_deg	0.833
r_symmetry_vdw_refined	0.242
r_nbd_refined	0.233
r_symmetry_vdw_other	0.226
r_nbd_other	0.184
r_xyhbond_nbd_refined	0.161
r_symmetry_hbond_refined	0.114
r_chiral_restr	0.085
r_bond_refined_d	0.015
r_xyhbond_nbd_other	0.008
r_gen_planes_refined	0.006
r_gen_planes_other	0.002
r_bond_other_d	0.001
r_nbtor_other
r_symmetry_hbond_other

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	4974
Nucleic Acid Atoms
Solvent Atoms	380
Heterogen Atoms	172

Software

Software
Software Name	Purpose
MOSFLM	data reduction
SCALA	data scaling
AMoRE	phasing
REFMAC	refinement
CCP4	data scaling