1YA7

Implications for interactions of proteasome with PAN and PA700 from the 1.9 A structure of a proteasome-11S activator complex

X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1PMA	PDB entry 1pma

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	5.7	294	PEG 1000, sodium phosphate citrate, LiSO4, imidazole, pH 5.7, VAPOR DIFFUSION, HANGING DROP, temperature 294K

Crystal Properties
Matthews coefficient	Solvent content
2.77	65

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 255.714	α = 90
b = 126.961	β = 92.63
c = 181.494	γ = 90

Symmetry
Space Group	C 1 2 1

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	ADSC QUANTUM 4		2004-02-22	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	NSLS BEAMLINE X25	1.283	NSLS	X25

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (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	2.3	100	100			257676	257676

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.3		100

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 (All)	R-Factor (Observed)	R-Work	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	PDB entry 1pma	2.3	20	257676	249402	991	99.98	0.17979	0.17979	0.17961	0.22403	RANDOM	45.254

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]
0.01		-0.01	0.01		-0.02

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	36.755
r_dihedral_angle_4_deg	17.01
r_dihedral_angle_3_deg	16.626
r_dihedral_angle_1_deg	6.531
r_scangle_it	3.936
r_scbond_it	2.482
r_mcangle_it	1.601
r_angle_refined_deg	1.464
r_mcbond_it	0.973
r_nbtor_refined	0.3

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	36.755
r_dihedral_angle_4_deg	17.01
r_dihedral_angle_3_deg	16.626
r_dihedral_angle_1_deg	6.531
r_scangle_it	3.936
r_scbond_it	2.482
r_mcangle_it	1.601
r_angle_refined_deg	1.464
r_mcbond_it	0.973
r_nbtor_refined	0.3
r_nbd_refined	0.214
r_xyhbond_nbd_refined	0.171
r_symmetry_vdw_refined	0.171
r_symmetry_hbond_refined	0.135
r_chiral_restr	0.097
r_bond_refined_d	0.015
r_gen_planes_refined	0.005

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	35035
Nucleic Acid Atoms
Solvent Atoms	1659
Heterogen Atoms	147

Software

Software
Software Name	Purpose
REFMAC	refinement
DENZO	data reduction
SCALEPACK	data scaling
AMoRE	phasing

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.