9Y36 | pdb_00009y36

X-RAY DIFFRACTION

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	3QR9

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	7.5	293.15	200 mM imidazole/malate, pH 7.5, 13-17 % PEG 4000, 0.5 mM MgCl2, 0.5 mM sodium pyrophosphate, 0.5 mM inhibitor 453e

Crystal Properties
Matthews coefficient	Solvent content
2.32	47

Symmetry
Space Group	C 1 2 1

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		2025-08-16	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	AUSTRALIAN SYNCHROTRON BEAMLINE MX2	0.95373	Australian Synchrotron	MX2

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	1.74	47.41	99.5	0.997	10.2	7		71446

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	1.74	1.77	90.5		0.715	1.7	6.5

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)	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	1.74	47.41	71445	3622	99.41	0.171	0.1694	0.1817	0.1997	0.2119	22.887

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]
0.347		-0.847	-0.407		0.551

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	16.305
r_dihedral_angle_3_deg	13.144
r_dihedral_angle_2_deg	12.348
r_lrange_it	6.274
r_lrange_other	6.184
r_dihedral_angle_1_deg	5.912
r_scangle_it	4.92
r_scangle_other	4.909
r_mcangle_other	3.549
r_mcangle_it	3.548

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	16.305
r_dihedral_angle_3_deg	13.144
r_dihedral_angle_2_deg	12.348
r_lrange_it	6.274
r_lrange_other	6.184
r_dihedral_angle_1_deg	5.912
r_scangle_it	4.92
r_scangle_other	4.909
r_mcangle_other	3.549
r_mcangle_it	3.548
r_scbond_it	3.334
r_scbond_other	3.329
r_mcbond_it	2.429
r_mcbond_other	2.426
r_angle_refined_deg	1.724
r_angle_other_deg	0.611
r_symmetry_nbd_refined	0.243
r_nbd_refined	0.226
r_nbd_other	0.213
r_symmetry_nbd_other	0.189
r_nbtor_refined	0.177
r_xyhbond_nbd_refined	0.16
r_symmetry_xyhbond_nbd_refined	0.135
r_chiral_restr	0.089
r_symmetry_nbtor_other	0.077
r_symmetry_xyhbond_nbd_other	0.027
r_bond_refined_d	0.009
r_gen_planes_refined	0.008
r_chiral_restr_other	0.004
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	4906
Nucleic Acid Atoms
Solvent Atoms	492
Heterogen Atoms	118

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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.