9IGP | pdb_00009igp

CD177 extracellular domain

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		291	20% w/v PEG 3350, 0.20 M ammonium nitrate

Crystal Properties
Matthews coefficient	Solvent content
3.03	59.37

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 192.99	α = 90
b = 192.99	β = 90
c = 71.808	γ = 120

Symmetry
Space Group	H 3

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 EIGER2 XE 16M		2018-11-28	M	SINGLE WAVELENGTH
2	1	x-ray	45	PIXEL	DECTRIS PILATUS 12M		2019-02-09	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I03	1.0718	Diamond	I03
2	SYNCHROTRON	DIAMOND BEAMLINE I23	2.7552	Diamond	I23

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	2.7	96.92	100	0.994	4.2	7		27651

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	2.7	2.83			0.363

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)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	SAD	THROUGHOUT	2.7	66.064	27364	1296	99.945	0.225	0.2236	0.2235	0.2585	0.2587	RANDOM	101.918

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]
0.11	0.055		0.11		-0.357

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_3_deg	15.894
r_dihedral_angle_6_deg	15.606
r_lrange_it	8.554
r_dihedral_angle_1_deg	8.516
r_dihedral_angle_2_deg	7.574
r_scangle_it	5.512
r_mcangle_it	4.682
r_scbond_it	3.39
r_mcbond_it	2.737
r_angle_refined_deg	2.043
r_nbtor_refined	0.269
r_symmetry_nbd_refined	0.18
r_nbd_refined	0.171
r_chiral_restr	0.146
r_ncsr_local_group_1	0.134
r_xyhbond_nbd_refined	0.109
r_symmetry_xyhbond_nbd_refined	0.033
r_bond_refined_d	0.007
r_gen_planes_refined	0.007

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	5592
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms	68

Software

Software
Software Name	Purpose
REFMAC	refinement
DIALS	data reduction
Aimless	data scaling
HKL2Map	phasing
XDS	data reduction
Coot	model building