1RJU | pdb_00001rju

Crystal structure of a truncated form of yeast copper thionein

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	7.2	293	250 mM KH2PO4, 1mM LiBr, pH 7.2, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Properties
Matthews coefficient	Solvent content
2.6	52.73

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 62.167	α = 90
b = 62.167	β = 90
c = 62.167	γ = 90

Symmetry
Space Group	P 43 3 2

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	100	CCD	MARRESEARCH		2003-11-05	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	EMBL/DESY, HAMBURG BEAMLINE BW7A	0.91920	EMBL/DESY, HAMBURG	BW7A

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	1.44	27.84	100	0.07	0.07	9.3	21.8	7922	7922			9.155

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)
	1.44	1.52	100		0.358	0.358	2.1	22.4	1117

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 (All)	R-Factor (Observed)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	SAD	THROUGHOUT	1.44	27.84	7239	7239	634	100	0.14687	0.14687	0.14482	0.15	0.17072	RANDOM	12.889

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]

RMS Deviations
Key	Refinement Restraint Deviation
r_scangle_it	8.032
r_sphericity_free	7.879
r_dihedral_angle_1_deg	6.006
r_scbond_it	5.003
r_sphericity_bonded	4.623
r_mcangle_it	3.519
r_rigid_bond_restr	2.684
r_mcbond_it	2.493
r_angle_other_deg	2.237
r_angle_refined_deg	2.073
r_symmetry_hbond_refined	0.337
r_symmetry_vdw_other	0.323
r_nbd_other	0.27
r_xyhbond_nbd_refined	0.244
r_nbd_refined	0.214
r_chiral_restr	0.143
r_symmetry_vdw_refined	0.138
r_gen_planes_other	0.108
r_nbtor_other	0.095
r_bond_other_d	0.065
r_gen_planes_refined	0.048
r_bond_refined_d	0.024

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	257
Nucleic Acid Atoms
Solvent Atoms	37
Heterogen Atoms	8

Software

Software
Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
CCP4	data scaling
SOLVE	phasing
RESOLVE	phasing