8QHO | pdb_00008qho

Human Carbonic Anhydrase II in complex with 3,4-dihydro-1H-benzo[c][1,2]oxaborinin-1-ol

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	4FIK

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	7	296	1.5 M sodium citrate, 0.1 M Tris pH 7.0

Crystal Properties
Matthews coefficient	Solvent content
2.11	41.7

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 42.45	α = 90
b = 41.44	β = 104.452
c = 72.55	γ = 90

Symmetry
Space Group	P 1 21 1

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	DECTRIS PILATUS 6M		2021-11-03	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ELETTRA BEAMLINE 11.2C	0.9717	ELETTRA	11.2C

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (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	1.43	41.141	99.5	0.059	0.064	0.999	20.26	6.11		45591

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.43	1.46	94.9		0.635	0.719	0.786	2.51	4.63

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	NONE	1.43	41.141	45590	2153	99.552	0.141	0.139	0.1439	0.1897	0.1896	18.019

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]
2.445		0.911	-1.096		-1.606

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	34.104
r_dihedral_angle_4_deg	23.49
r_rigid_bond_restr	12.967
r_dihedral_angle_3_deg	12.381
r_dihedral_angle_1_deg	7.27
r_lrange_it	4.112
r_lrange_other	4.107
r_scangle_it	3.823
r_scangle_other	3.822
r_mcangle_other	3.299
r_mcangle_it	3.293
r_scbond_it	3.282
r_scbond_other	3.28
r_mcbond_it	2.48
r_mcbond_other	2.479
r_angle_refined_deg	2.054
r_angle_other_deg	1.5
r_nbd_refined	0.226
r_symmetry_nbd_refined	0.211
r_symmetry_nbd_other	0.201
r_nbd_other	0.188
r_symmetry_xyhbond_nbd_refined	0.178
r_nbtor_refined	0.173
r_xyhbond_nbd_refined	0.16
r_chiral_restr	0.111
r_xyhbond_nbd_other	0.097
r_symmetry_nbtor_other	0.088
r_metal_ion_refined	0.03
r_symmetry_xyhbond_nbd_other	0.018
r_bond_refined_d	0.015
r_gen_planes_refined	0.013
r_bond_other_d	0.008
r_gen_planes_other	0.002

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2053
Nucleic Acid Atoms
Solvent Atoms	264
Heterogen Atoms	19

Software

Software
Software Name	Purpose
REFMAC	refinement
XDS	data reduction
XSCALE	data scaling
REFMAC	phasing