9TJQ | pdb_00009tjq

G14 variant of 57aBi scaffold crystallized in P6422

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	9THX

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	7.5	291	28% (v/v) PEG 400 0.2 M CaCl2, 0.1 M HEPES

Crystal Properties
Matthews coefficient	Solvent content
2.41	48.89

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 69.451	α = 90
b = 69.451	β = 90
c = 117.227	γ = 120

Symmetry
Space Group	P 64 2 2

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	Bruker PHOTON II		2016-08-01	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	LIQUID ANODE	BRUKER METALJET	1.3418

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	Rrim I (All)	Rpim I (All)	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	2.19	33.32	78.7	0.188	0.058	0.997	11.3	10.1		7219

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	Rrim I (All)	Rpim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.19	2.36	23.6		2.162	0.637	0.694		11.5

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-Factor (Observed)	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	2.19	33.318	7210	364	78.867	0.235	0.235	0.2324	0.2388	0.2828	0.2729	RANDOM	46.992

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]
0.218	0.109		0.218		-0.706

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_3_deg	18.069
r_dihedral_angle_6_deg	15.486
r_lrange_it	8.798
r_lrange_other	8.775
r_dihedral_angle_2_deg	8.729
r_dihedral_angle_1_deg	7.2
r_scangle_it	6.954
r_scangle_other	6.949
r_mcangle_it	6.159
r_mcangle_other	6.155
r_scbond_it	4.506
r_scbond_other	4.502
r_mcbond_it	4.368
r_mcbond_other	4.361
r_angle_refined_deg	1.688
r_angle_other_deg	0.532
r_nbd_refined	0.219
r_xyhbond_nbd_refined	0.219
r_symmetry_nbd_other	0.205
r_nbtor_refined	0.183
r_symmetry_xyhbond_nbd_refined	0.176
r_nbd_other	0.152
r_symmetry_nbd_refined	0.125
r_symmetry_nbtor_other	0.09
r_chiral_restr	0.073
r_bond_refined_d	0.007
r_gen_planes_refined	0.007
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1007
Nucleic Acid Atoms
Solvent Atoms	30
Heterogen Atoms	11

Software

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