9IF2 | pdb_00009if2

ZnT1 CTD regulation

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	Other		used unpublished low resolution model from phasing as starting model

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		298	0.1M sodium acetate pH 4.6, 0.14M calcium acetate, 15% w/v% PEG 3000

Crystal Properties
Matthews coefficient	Solvent content
2.65	53.53

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 77.538	α = 90
b = 83.062	β = 90
c = 85.862	γ = 90

Symmetry
Space Group	P 21 21 21

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 S 16M		2022-02-19	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I03	0.976	Diamond	I03

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (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	2.11	59.7	100	0.07	1	17.5	13.4		32655

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.11	2.17			5.158	0.225	0.5

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	MOLECULAR REPLACEMENT	THROUGHOUT	2.11	59.699	32591	1734	99.991	0.227	0.2245	0.2249	0.267	0.2667	RANDOM	89.133

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]
-0.994			-0.255		1.249

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_3_deg	16.599
r_dihedral_angle_6_deg	14.197
r_lrange_it	14.013
r_scangle_it	10.647
r_mcangle_it	9.402
r_dihedral_angle_2_deg	8.361
r_scbond_it	8.102
r_dihedral_angle_1_deg	6.815
r_mcbond_it	6.511
r_angle_refined_deg	1.858
r_symmetry_xyhbond_nbd_refined	0.345
r_nbtor_refined	0.309
r_symmetry_nbd_refined	0.295
r_nbd_refined	0.242
r_xyhbond_nbd_refined	0.205
r_ncsr_local_group_3	0.186
r_ncsr_local_group_7	0.177
r_ncsr_local_group_14	0.17
r_ncsr_local_group_10	0.167
r_ncsr_local_group_8	0.151
r_ncsr_local_group_13	0.151
r_ncsr_local_group_4	0.149
r_ncsr_local_group_11	0.146
r_ncsr_local_group_5	0.144
r_ncsr_local_group_12	0.138
r_ncsr_local_group_9	0.135
r_chiral_restr	0.134
r_metal_ion_refined	0.134
r_ncsr_local_group_1	0.126
r_ncsr_local_group_6	0.124
r_ncsr_local_group_15	0.12
r_ncsr_local_group_2	0.118
r_symmetry_metal_ion_refined	0.043
r_bond_refined_d	0.009
r_gen_planes_refined	0.009

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	3617
Nucleic Acid Atoms
Solvent Atoms	49
Heterogen Atoms	19

Software

Software
Software Name	Purpose
REFMAC	refinement
xia2	data reduction
Aimless	data scaling
PHASER	phasing