8K4X

Structure of a triple-helix region of human Collagen type XVII from Trautec

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		293	0.2 M Potassium chloride, 0.05 M HEPES pH 7.5, 35% PEG 400

Crystal Properties
Matthews coefficient	Solvent content
1.75	29.58

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 36.936	α = 90
b = 24.334	β = 104.851
c = 60.814	γ = 90

Symmetry
Space Group	P 1 21 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 PILATUS3 6M		2023-06-16	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SPRING-8 BEAMLINE BL45XU	1.00000	SPring-8	BL45XU

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	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	1.45	35.7	99.6	0.998	14.9	5.1		18895

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.45	1.47			0.959	4.9

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	R-Free	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	1.45	35.7	18887	884	99.557	0.176	0.1728	0.2423	20.587

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]
-1.065		0.47	2.002		-1.04

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	13.802
r_dihedral_angle_3_deg	10.941
r_lrange_it	6.148
r_lrange_other	5.474
r_scangle_it	4.383
r_scangle_other	4.381
r_mcangle_it	4.171
r_mcangle_other	4.169
r_dihedral_angle_1_deg	4.124
r_scbond_it	3.439
r_mcbond_it	3.438
r_scbond_other	3.424
r_mcbond_other	3.384
r_rigid_bond_restr	2.341
r_angle_refined_deg	1.133
r_angle_other_deg	0.449
r_symmetry_nbd_refined	0.275
r_nbd_other	0.226
r_symmetry_xyhbond_nbd_refined	0.194
r_nbd_refined	0.188
r_symmetry_nbd_other	0.177
r_nbtor_refined	0.17
r_xyhbond_nbd_refined	0.142
r_symmetry_nbtor_other	0.097
r_chiral_restr	0.046
r_chiral_restr_other	0.035
r_bond_refined_d	0.007
r_gen_planes_refined	0.005
r_bond_other_d	0.001
r_gen_planes_other

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1034
Nucleic Acid Atoms
Solvent Atoms	206
Heterogen Atoms

Software

Software
Software Name	Purpose
REFMAC	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing