8QUF | pdb_00008quf

carbonic anhydrase XII mimic in complex with 2-(3-((N-(4-sulfamoylbenzyl)pyridine-3-sulfonamido)methyl)phenoxy)acetic acid

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	5G0C

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP		293	2.7 M ammonium sulfate, 100 mM Tris, pH 8.0

Crystal Properties
Matthews coefficient	Solvent content
2.08	41

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 42.17	α = 90
b = 41.54	β = 104.102
c = 71.74	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		2022-09-27	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ELETTRA BEAMLINE 11.2C	1.00	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	1.14	40.933	99.5	0.061	0.067	0.999	12.61	5.3		87318

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	1.14	1.17	96		0.566	0.653	0.792	2.28	3.8

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	1.141	40.933	87317	4445	99.543	0.165	0.1641	0.1648	0.1785	0.1788	15.471

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]
-0.366		-0.209	0.144		0.291

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	37.606
r_dihedral_angle_4_deg	14.582
r_dihedral_angle_3_deg	11.883
r_dihedral_angle_1_deg	6.906
r_lrange_it	5.565
r_lrange_other	5.487
r_scangle_it	4.161
r_scangle_other	4.151
r_scbond_it	2.744
r_scbond_other	2.721
r_mcangle_it	2.235
r_mcangle_other	2.235
r_angle_refined_deg	1.942
r_angle_other_deg	1.5
r_mcbond_it	1.469
r_mcbond_other	1.469
r_symmetry_nbd_refined	0.265
r_nbd_refined	0.24
r_symmetry_nbd_other	0.203
r_symmetry_xyhbond_nbd_refined	0.196
r_nbd_other	0.194
r_nbtor_refined	0.181
r_xyhbond_nbd_refined	0.173
r_symmetry_xyhbond_nbd_other	0.152
r_chiral_restr	0.116
r_symmetry_nbtor_other	0.086
r_metal_ion_refined	0.066
r_bond_refined_d	0.015
r_gen_planes_refined	0.011
r_gen_planes_other	0.002
r_bond_other_d	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2063
Nucleic Acid Atoms
Solvent Atoms	273
Heterogen Atoms	71

Software

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