7TSU | pdb_00007tsu

Room temperature rsEospa Cis-state structure at pH 5.5

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	5OQ9	5OQ9, 5OQA
experimental model	PDB	5OQA	5OQ9, 5OQA

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	BATCH MODE	5.5	293	0.2 M LITHIUM SULFATE 0.1 M TRIS-Cl pH 5.5, 25% PEG 3350, 15 mg/ml PROTEIN CONCENTRATION

Crystal Properties
Matthews coefficient	Solvent content
2.25	45.36

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 39.6	α = 90
b = 74.43	β = 90
c = 78.32	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	298	PIXEL	DECTRIS PILATUS3 6M		2020-03-03	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I24	0.9801	Diamond	I24

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	1.75	78.91	100	0.91	3.772	332.5		8063563

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	1.75	1.813	100		0.41	1.02

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	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	MOLECULAR REPLACEMENT	FREE R-VALUE	5OQ9, 5OQA	1.75	54.011	24056	1159	99.967	0.206	0.2044	0.21	0.2399	0.24	21.69

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]
0.549			-0.116		-0.432

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	29.341
r_dihedral_angle_4_deg	17.389
r_dihedral_angle_3_deg	13.433
r_dihedral_angle_1_deg	7.426
r_lrange_it	5.537
r_lrange_other	5.489
r_scangle_it	3.873
r_scangle_other	3.872
r_mcangle_other	2.972
r_mcangle_it	2.971
r_scbond_it	2.407
r_scbond_other	2.406
r_mcbond_it	1.82
r_mcbond_other	1.765
r_angle_refined_deg	1.602
r_angle_other_deg	1.306
r_nbd_refined	0.195
r_symmetry_xyhbond_nbd_other	0.185
r_symmetry_nbd_other	0.181
r_symmetry_nbd_refined	0.173
r_nbtor_refined	0.168
r_xyhbond_nbd_refined	0.152
r_symmetry_nbtor_other	0.142
r_nbd_other	0.14
r_symmetry_xyhbond_nbd_refined	0.112
r_chiral_restr	0.07
r_bond_refined_d	0.009
r_gen_planes_refined	0.008
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1748
Nucleic Acid Atoms
Solvent Atoms	107
Heterogen Atoms

Software

Software
Software Name	Purpose
REFMAC	refinement
CrystFEL	data reduction
CrystFEL	data scaling
REFMAC	phasing