Experiment: 8TTM

X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	7LBL

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	6.5	292	0.1M BisTris pH 6.5 and 21% PEG MME 5000

Crystal Properties
Matthews coefficient	Solvent content
2.7	54.45

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 49.782	α = 90
b = 79.394	β = 90
c = 142.902	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 EIGER X 16M		2023-03-04	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	APS BEAMLINE 22-ID	1	APS	22-ID

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (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	2.51	40.88	98.13	0.24	0.254	0.079	0.993	30.3	10.2		19700

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	Rpim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.51	2.6			0.961	1.02	0.336	0.852	2.25

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 (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	2.51	40.88	17731	1970	98.13	0.20601	0.20192	0.21	0.2425	0.25	RANDOM	77.516

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]
0.64			0.38		-1.02

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_3_deg	15.098
r_dihedral_angle_1_deg	7.549
r_long_range_B_refined	7.191
r_long_range_B_other	7.19
r_scangle_other	5.357
r_scbond_it	3.535
r_scbond_other	3.534
r_mcangle_it	3.479
r_mcangle_other	3.478
r_mcbond_it	2.259

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_3_deg	15.098
r_dihedral_angle_1_deg	7.549
r_long_range_B_refined	7.191
r_long_range_B_other	7.19
r_scangle_other	5.357
r_scbond_it	3.535
r_scbond_other	3.534
r_mcangle_it	3.479
r_mcangle_other	3.478
r_mcbond_it	2.259
r_mcbond_other	2.259
r_angle_refined_deg	1.446
r_angle_other_deg	0.476
r_chiral_restr	0.074
r_bond_refined_d	0.013
r_gen_planes_refined	0.006
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	3322
Nucleic Acid Atoms
Solvent Atoms	6
Heterogen Atoms	198

Software

Software
Software Name	Purpose
PDB-REDO	refinement
PHENIX	refinement
PHENIX	phasing
HKL-2000	data scaling
HKL-2000	data reduction

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.