Experiment: 30GK

X-RAY DIFFRACTION

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	6SDV

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	8	293	26% PEG 3350, 0.1M Tris-HCl pH 8.0, 1M LiCl

Crystal Properties
Matthews coefficient	Solvent content
2.27	45.87

Symmetry
Space Group	P 21 21 21

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 CdTe 16M		2025-04-01	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	PETRA III, EMBL c/o DESY BEAMLINE P14 (MX2)	0.9763	PETRA III, EMBL c/o DESY	P14 (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	1.953	59.524	98.84	0.9993	18.801	13.11		89865			29.18

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	1.953	1.987			0.739

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	1.953	59.524	89865	4482	98.793	0.214	0.2122	0.2171	0.251	0.2533	39.827

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]
0.788			-0.769		-0.019

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	33.559
r_dihedral_angle_4_deg	18.584
r_dihedral_angle_3_deg	13.689
r_dihedral_angle_1_deg	6.649
r_lrange_it	3.714
r_lrange_other	3.671
r_mcangle_it	2.075
r_mcangle_other	2.075
r_scangle_it	1.725
r_scangle_other	1.725

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	33.559
r_dihedral_angle_4_deg	18.584
r_dihedral_angle_3_deg	13.689
r_dihedral_angle_1_deg	6.649
r_lrange_it	3.714
r_lrange_other	3.671
r_mcangle_it	2.075
r_mcangle_other	2.075
r_scangle_it	1.725
r_scangle_other	1.725
r_mcbond_it	1.219
r_mcbond_other	1.219
r_angle_refined_deg	1.212
r_angle_other_deg	1.087
r_scbond_it	1.004
r_scbond_other	1.004
r_nbd_other	0.183
r_nbd_refined	0.174
r_symmetry_nbd_other	0.171
r_nbtor_refined	0.155
r_symmetry_nbd_refined	0.144
r_xyhbond_nbd_refined	0.115
r_symmetry_nbtor_other	0.072
r_symmetry_xyhbond_nbd_other	0.053
r_chiral_restr	0.047
r_symmetry_xyhbond_nbd_refined	0.043
r_bond_refined_d	0.003
r_gen_planes_refined	0.003
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	9234
Nucleic Acid Atoms
Solvent Atoms	491
Heterogen Atoms	221

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.

30GK | pdb_000030gk