3CHM | pdb_00003chm

Crystal structure of PCI domain from A. thaliana COP9 signalosome subunit 7 (CSN7)

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	7.2	292	23% w/v PEG 8000, 0.1M sodium cacodylate (pH 7.2), 0.06-0.08M Mg-acetate tetrahydrate, VAPOR DIFFUSION, SITTING DROP, temperature 292K

Crystal Properties
Matthews coefficient	Solvent content
2.36	47.78

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 57.094	α = 90
b = 85.796	β = 90
c = 72.343	γ = 90

Symmetry
Space Group	C 2 2 21

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	110	CCD	ADSC QUANTUM 210		2006-11-30	M	SINGLE WAVELENGTH
2	1	x-ray		CCD	MAR CCD 165 mm		2005-09-20	M	MAD
1,2	1

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID14-1	0.934	ESRF	ID14-1
2	SYNCHROTRON	ESRF BEAMLINE BM16	0.97944, 0.97967	ESRF	BM16

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (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
1,2	1.5	50	99.5	0.035	47.9	8.9	28989	28844

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R-Sym I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1,2	1.5	1.55	97.1		0.269	6.7	5.8	2763

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 (DCC)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MAD	THROUGHOUT	1.5	36.9	28708	27494	1186	99.53	0.16559	0.16559	0.16413	0.16	0.19996	0.2	RANDOM	17.727

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]
-0.54			0.35		0.19

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	39.262
r_dihedral_angle_4_deg	18.597
r_dihedral_angle_3_deg	11.028
r_dihedral_angle_1_deg	7.288
r_scangle_it	4.518
r_scbond_it	3.439
r_mcangle_it	2.231
r_mcbond_it	2.055
r_angle_refined_deg	1.54
r_angle_other_deg	0.999
r_mcbond_other	0.334
r_symmetry_vdw_refined	0.331
r_nbd_refined	0.23
r_symmetry_vdw_other	0.203
r_nbd_other	0.201
r_symmetry_hbond_refined	0.2
r_nbtor_refined	0.178
r_xyhbond_nbd_refined	0.173
r_metal_ion_refined	0.099
r_chiral_restr	0.095
r_nbtor_other	0.09
r_bond_refined_d	0.01
r_gen_planes_refined	0.01
r_bond_other_d	0.007
r_gen_planes_other	0.003

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1266
Nucleic Acid Atoms
Solvent Atoms	244
Heterogen Atoms	14

Software

Software
Software Name	Purpose
REFMAC	refinement
ADSC	data collection
HKL-2000	data reduction
SCALEPACK	data scaling
SHARP	phasing