30TN | pdb_000030tn

14-3-3sigma protein binding to ERalpha-strong peptide (RSH mutation)

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	5N75

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		277	0.095 M HEPES pH=7.1-7.7 0.19 M CaCl2 5% glycerol 24-29% PEG400

Crystal Properties
Matthews coefficient	Solvent content
2.65	53.61

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 82.503	α = 90
b = 112.053	β = 90
c = 62.813	γ = 90

Symmetry
Space Group	C 2 2 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 X 9M		2024-09-06	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID23-2	0.873128	ESRF	ID23-2

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	1.8	66.44	99.8	0.998	14.7	8.6		27278

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	1.8	1.84			0.898	4.5

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	1.8	45.685	27234	1361	99.525	0.16	0.1581	0.1723	0.1877	0.1983	RANDOM	14.772

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]
0.759			-0.56		-0.199

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	14.119
r_dihedral_angle_3_deg	12.338
r_lrange_it	10.364
r_lrange_other	10.327
r_scangle_it	9.125
r_scangle_other	9.122
r_scbond_it	6.661
r_scbond_other	6.658
r_dihedral_angle_1_deg	5.87
r_mcangle_it	4.733
r_mcangle_other	4.733
r_mcbond_it	3.528
r_mcbond_other	3.508
r_angle_refined_deg	0.867
r_angle_other_deg	0.381
r_nbd_refined	0.205
r_nbtor_refined	0.164
r_symmetry_nbd_other	0.159
r_symmetry_nbd_refined	0.151
r_xyhbond_nbd_refined	0.117
r_nbd_other	0.117
r_symmetry_xyhbond_nbd_refined	0.1
r_metal_ion_refined	0.087
r_symmetry_metal_ion_refined	0.076
r_symmetry_nbtor_other	0.066
r_chiral_restr	0.04
r_bond_refined_d	0.004
r_gen_planes_refined	0.003
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1913
Nucleic Acid Atoms
Solvent Atoms	225
Heterogen Atoms	6

Software

Software
Software Name	Purpose
REFMAC	refinement
PDB-REDO	refinement
autoPROC	data reduction
Aimless	data scaling
MOLREP	phasing