9HH6 | pdb_00009hh6

X-RAY DIFFRACTION - SOLUTION SCATTERING

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

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	8.5	292	0.1 mM sodium phosphate pH 6.5 10 % w/v Peg 8000 0.3 M NaCl

Symmetry
Space Group	P 63

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 16M		2022-06-13	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	PETRA III, DESY BEAMLINE P11	1.033	PETRA III, DESY	P11

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	R Sym I (Observed)	Rrim I (All)	Rpim I (All)	CC (Half)	R Split (All)	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	49.26	99.9	0.098				0.989		7.7	4.7		95339

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	R Merge I (Observed)	R-Sym I (Observed)	Rrim I (All)	Rpim I (All)	CC (Half)	R Split (All)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2	2.03		0.868				0.625

Statistics
Diffraction ID	Structure Solution Method	Resolution (High)	Resolution (Low)	Cut-off Sigma (I)	Cut-off Sigma (F)	Number Reflections (All)	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	2	49.26				90542	4755	99.76		0.16239	0.16162	0.1691	0.17693	0.182	RANDOM	48.021

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]
-7.33			-7.33		14.66

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_3_deg	12.057
r_dihedral_angle_2_deg	7.194
r_dihedral_angle_1_deg	6.555
r_long_range_B_other	6.32
r_long_range_B_refined	6.318
r_scangle_other	4.729
r_scbond_other	3.212
r_scbond_it	3.211
r_mcangle_it	3.025
r_mcangle_other	3.025

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_3_deg	12.057
r_dihedral_angle_2_deg	7.194
r_dihedral_angle_1_deg	6.555
r_long_range_B_other	6.32
r_long_range_B_refined	6.318
r_scangle_other	4.729
r_scbond_other	3.212
r_scbond_it	3.211
r_mcangle_it	3.025
r_mcangle_other	3.025
r_mcbond_it	2.206
r_mcbond_other	2.205
r_angle_refined_deg	1.167
r_angle_other_deg	0.418
r_chiral_restr	0.059
r_bond_refined_d	0.004
r_gen_planes_refined	0.004
r_bond_other_d	0.001
r_gen_planes_other	0.001
r_dihedral_angle_4_deg
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_scangle_it
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	5475
Nucleic Acid Atoms
Solvent Atoms	367
Heterogen Atoms	84

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.