7M23

Human carbonic anhydrase II in complex with troglitazone

X-RAY DIFFRACTION

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Starting Model(s)

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

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	8.3	293	Protein concentration was 4 mg/mL; equal volumes (250 nL) of protein plus reservoir were added to the plate; the reservoir was 1.5 M tri-potassium citrate, 0.1 M tris buffer at pH 8.3.

Crystal Properties
Matthews coefficient	Solvent content
2.07	40.65

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 42.333	α = 90
b = 41.292	β = 104.356
c = 71.688	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 EIGER X 9M		2019-09-14	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	AUSTRALIAN SYNCHROTRON BEAMLINE MX1	0.953656	Australian Synchrotron	MX1

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	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	1.3	41.29	99.1	0.071	0.045	0.998	12.2	6.6		58740

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Rpim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.3	1.32			0.627	0.416	0.825

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	6odz	1.3	39.943	58729	2900	99.112	0.122	0.1204	0.151	14.036

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]
-0.295		-0.669	-1.03		1.475

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	34.238
r_dihedral_angle_4_deg	20.433
r_dihedral_angle_3_deg	11.887
r_dihedral_angle_1_deg	7.132
r_lrange_it	2.961
r_lrange_other	2.689
r_scangle_it	2.515
r_scangle_other	2.514
r_rigid_bond_restr	2.063
r_scbond_it	2.017
r_scbond_other	2.013
r_mcangle_other	1.86
r_mcangle_it	1.856
r_angle_refined_deg	1.608
r_angle_other_deg	1.452
r_mcbond_it	1.446
r_mcbond_other	1.446
r_nbd_refined	0.245
r_symmetry_nbd_refined	0.245
r_symmetry_xyhbond_nbd_refined	0.219
r_nbd_other	0.21
r_symmetry_nbd_other	0.201
r_xyhbond_nbd_refined	0.199
r_nbtor_refined	0.175
r_xyhbond_nbd_other	0.125
r_chiral_restr	0.092
r_symmetry_nbtor_other	0.083
r_metal_ion_refined	0.048
r_bond_refined_d	0.011
r_gen_planes_refined	0.01
r_gen_planes_other	0.002
r_bond_other_d	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2059
Nucleic Acid Atoms
Solvent Atoms	279
Heterogen Atoms	32

Software

Software
Software Name	Purpose
REFMAC	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing