23FI | pdb_000023fi

X-RAY DIFFRACTION

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	8JUK

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	4.6	298	Sodium acetate trihydrate, Sodium formate

Crystal Properties
Matthews coefficient	Solvent content
2.75	55.23

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 9M		2023-11-30	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID23-2	0.8731	ESRF	ID23-2

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	1.94	46.51	99.6	0.112	0.121	0.046	0.999	12.8	13.4		40845			42.7

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	1.94	2.01			2.95	1.138	0.55	0.9

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	1.942	46.51	40708	1956	99.314	0.189	0.1862	0.1934	0.2368	0.2415	52.088

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]
1.342			2.377		-3.719

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_3_deg	13.318
r_dihedral_angle_6_deg	12.964
r_lrange_other	10.82
r_lrange_it	10.803
r_scangle_it	7.976
r_scangle_other	7.974
r_dihedral_angle_1_deg	6.896
r_dihedral_angle_2_deg	6.024
r_mcangle_it	5.829
r_mcangle_other	5.828

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_3_deg	13.318
r_dihedral_angle_6_deg	12.964
r_lrange_other	10.82
r_lrange_it	10.803
r_scangle_it	7.976
r_scangle_other	7.974
r_dihedral_angle_1_deg	6.896
r_dihedral_angle_2_deg	6.024
r_mcangle_it	5.829
r_mcangle_other	5.828
r_scbond_it	5.228
r_scbond_other	5.226
r_mcbond_it	4.205
r_mcbond_other	4.201
r_angle_refined_deg	1.471
r_angle_other_deg	0.486
r_nbd_refined	0.211
r_symmetry_nbd_other	0.202
r_nbd_other	0.2
r_symmetry_xyhbond_nbd_refined	0.192
r_xyhbond_nbd_refined	0.178
r_nbtor_refined	0.171
r_ncsr_local_group_1	0.112
r_symmetry_nbd_refined	0.087
r_symmetry_nbtor_other	0.08
r_chiral_restr	0.072
r_bond_refined_d	0.006
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	3486
Nucleic Acid Atoms
Solvent Atoms	303
Heterogen Atoms	28

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.

.id_divider{ color: #ccc; padding: 0 10px 0 10px; } .extended_id_info{ color: #ccc; font-size: 18px; position: relative; top: -10px; left: 4px; } 23FI | pdb_000023fi