7W7J

Crystal structure of IrCp* immobilized apo-R52H-rHLFr (25 equiv)

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1DAT

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP		293	Ammonium sulfate (0.5-1.0M), Cadmium sulfate(12-20mM)

Crystal Properties
Matthews coefficient	Solvent content
3.19	61.45

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 181.995	α = 90
b = 181.995	β = 90
c = 181.995	γ = 90

Symmetry
Space Group	F 4 3 2

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	100	PIXEL	RIGAKU HyPix-6000HE		2021-11-09	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	ROTATING ANODE	RIGAKU	1.5418

Data Collection

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	1.5	19.086	99.3	0.997	12	4.4		41390

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	1.5	1.53			0.366

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (All)	R-Work	R-Free	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	1dat	1.5	19.086	41378	2062	99.043	0.184	0.1829	0.2103	15.52

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]

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	34.488
r_dihedral_angle_4_deg	20.383
r_dihedral_angle_3_deg	13.141
r_lrange_it	6.525
r_lrange_other	6.148
r_dihedral_angle_1_deg	4.8
r_scangle_it	4.315
r_scangle_other	4.309
r_scbond_it	2.711
r_scbond_other	2.701
r_mcangle_it	2.679
r_mcangle_other	2.678
r_angle_refined_deg	1.707
r_mcbond_it	1.657
r_mcbond_other	1.644
r_angle_other_deg	1.577
r_symmetry_metal_ion_refined	0.391
r_metal_ion_refined	0.324
r_xyhbond_nbd_refined	0.278
r_symmetry_nbd_refined	0.277
r_nbd_refined	0.274
r_nbd_other	0.226
r_nbtor_refined	0.179
r_symmetry_nbd_other	0.178
r_symmetry_xyhbond_nbd_other	0.175
r_symmetry_xyhbond_nbd_refined	0.151
r_chiral_restr	0.093
r_symmetry_nbtor_other	0.085
r_xyhbond_nbd_other	0.021
r_bond_refined_d	0.012
r_gen_planes_refined	0.009
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1384
Nucleic Acid Atoms
Solvent Atoms	231
Heterogen Atoms	21

Software

Software
Software Name	Purpose
REFMAC	refinement
CrysalisPro	data reduction
Aimless	data scaling
MOLREP	phasing