2OL9 | pdb_00002ol9

Peptide corresponding to residues 170-175 of human prion

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
in silico model	Other		idealized 6 residue beta strand

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	7	298	200 mM Hepes, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 14.002	α = 75.23
b = 4.879	β = 75.88
c = 15.1	γ = 78.89

Symmetry
Space Group	P 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 315		2006-09-14	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ALS BEAMLINE 8.2.2		ALS	8.2.2

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	0.85	90	82.1	0.036	48.7	3.6	2681	2681		-3	4.4

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)
	0.85	0.88	33.5		0.078		2.3	107

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 (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	idealized 6 residue beta strand	0.85	14.29	2680	2680	134	82.11	0.073	0.073	0.073	0.09	0.078	0.08	RANDOM	1.335

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]
0.02	-0.03	-0.06	-0.04	0.06	0.02

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	52.08
r_dihedral_angle_3_deg	8.571
r_dihedral_angle_1_deg	7.839
r_sphericity_free	1.686
r_angle_refined_deg	1.019
r_scangle_it	0.857
r_rigid_bond_restr	0.688
r_scbond_it	0.651
r_sphericity_bonded	0.569
r_angle_other_deg	0.505
r_mcangle_it	0.484
r_mcbond_it	0.394
r_nbd_other	0.19
r_symmetry_vdw_other	0.19
r_nbtor_refined	0.176
r_nbd_refined	0.081
r_symmetry_hbond_refined	0.081
r_chiral_restr	0.073
r_mcbond_other	0.073
r_nbtor_other	0.072
r_symmetry_vdw_refined	0.034
r_bond_refined_d	0.005
r_gen_planes_refined	0.003
r_bond_other_d	0.001
r_gen_planes_other

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	51
Nucleic Acid Atoms
Solvent Atoms	5
Heterogen Atoms

Software

Software
Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
PHASER	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
BOS	data collection