9GLK | pdb_00009glk

Crystal Structure of UFC1 E149I

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	2Z6O

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	5.5	293	0.1M Bis-Tris pH 5.5, 2.0M Ammonium sulfate

Crystal Properties
Matthews coefficient	Solvent content
2.04	39.76

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 47.3	α = 90
b = 47.3	β = 90
c = 143.27	γ = 90

Symmetry
Space Group	P 41 21 2

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	298	PIXEL	DECTRIS PILATUS 200K		2022-08-09	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	ROTATING ANODE	RIGAKU	1.54187

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	Rrim 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	2.03	39.47	99.5	0.19	0.973	10.38	3.38		19946			19.32

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	Rrim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.03	2.103	99.8		0.959	0.49	1.75	2.18

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 (All)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	2.03	39.47	11193	564	99.875	0.211	0.2085	0.2166	0.2471	0.2532	14.729

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]
-0.643			-0.643		1.286

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	30.543
r_dihedral_angle_4_deg	18.181
r_dihedral_angle_3_deg	15.208
r_dihedral_angle_1_deg	7.181
r_lrange_it	5.264
r_lrange_other	4.744
r_scangle_it	2.298
r_scangle_other	2.297
r_mcangle_it	1.696
r_mcangle_other	1.696
r_angle_refined_deg	1.571
r_scbond_it	1.535
r_scbond_other	1.534
r_angle_other_deg	1.334
r_mcbond_it	1.063
r_mcbond_other	1.058
r_symmetry_xyhbond_nbd_refined	0.255
r_symmetry_nbd_refined	0.236
r_nbd_other	0.232
r_symmetry_nbd_other	0.206
r_nbd_refined	0.202
r_xyhbond_nbd_refined	0.188
r_nbtor_refined	0.167
r_symmetry_nbtor_other	0.079
r_chiral_restr	0.078
r_bond_refined_d	0.009
r_gen_planes_refined	0.008
r_gen_planes_other	0.002
r_bond_other_d	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1345
Nucleic Acid Atoms
Solvent Atoms	171
Heterogen Atoms	5

Software

Software
Software Name	Purpose
REFMAC	refinement
Coot	model building