8T86 | pdb_00008t86

Racemic mixture of amylin segment 25-AILSS-29 forms heterochiral rippled beta-sheet

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	BATCH MODE		298	hexafluoroisopropanol, water

Crystal Properties
Matthews coefficient	Solvent content
1.54	20.19

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 9.5	α = 90.452
b = 9.88	β = 98.132
c = 16.29	γ = 94.376

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	PIXEL	DECTRIS EIGER X 16M		2022-12-09	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	APS BEAMLINE 24-ID-E	0.97918	APS	24-ID-E

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	CC (Half)	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	1.1	16.123	80.3	0.142	0.159	0.992	4.86	5.1		1898

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.1	1.16			0.955	1.067	0.651

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Resolution (High)	Resolution (Low)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (All)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	Mean Isotropic B
X-RAY DIFFRACTION	AB INITIO PHASING	FREE R-VALUE	1.102	16.123	1897	190	80.723	0.154	0.1517	0.16	0.1793	0.19	12.265

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]
-0.46	-0.123	-1.105	0.488	-0.219	0.305

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_3_deg	5.424
r_lrange_other	4.945
r_lrange_it	4.7
r_dihedral_angle_1_deg	2.795
r_scangle_other	1.152
r_scangle_it	1.134
r_mcangle_it	1.013
r_mcangle_other	0.996
r_mcbond_it	0.838
r_scbond_it	0.834
r_mcbond_other	0.829
r_angle_refined_deg	0.754
r_scbond_other	0.698
r_rigid_bond_restr	0.386
r_angle_other_deg	0.287
r_nbd_other	0.16
r_symmetry_nbd_other	0.152
r_nbtor_refined	0.123
r_nbd_refined	0.104
r_symmetry_nbtor_other	0.097
r_symmetry_xyhbond_nbd_refined	0.094
r_xyhbond_nbd_refined	0.057
r_chiral_restr	0.033
r_symmetry_nbd_refined	0.018
r_bond_refined_d	0.005
r_gen_planes_refined	0.002
r_bond_other_d	0.001
r_gen_planes_other

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	34
Nucleic Acid Atoms
Solvent Atoms	5
Heterogen Atoms

Software

Software
Software Name	Purpose
REFMAC	refinement
XSCALE	data scaling
XDS	data reduction
SHELXD	phasing