6UFC | pdb_00006ufc

Carbonic anhydrase 2 with inhibitor (2Z)-2-[(4-methoxyphenyl)methylidene]-3-oxo-N-(4-sulfamoylphenyl)butanamide (11d/D4)

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	4CQ0	PDB entry 4CQ0

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		281	200 nL 7 mg/mL protein + 200 nL reservoir solution (2.5-2.8 M ammonium sulfate, 100 mM Tris, pH 8.5-9.0)

Crystal Properties
Matthews coefficient	Solvent content
2.11	41.78

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 42.561	α = 90
b = 41.518	β = 104.72
c = 72.412	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 16M		2017-11-02	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	AUSTRALIAN SYNCHROTRON BEAMLINE MX2	0.9537299871	Australian Synchrotron	MX2

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	1.32	41.52	97.7	0.083	0.035	0.998	12.2	6.7		55556

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	1.32	1.35			0.536	0.235	0.81	3.2

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 (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	PDB entry 4CQ0	1.325	40.266	55536	2669	97.37	0.118	0.1168	0.12	0.1443	0.14	14.341

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]
0.003		0.098	-0.322		0.235

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	35.467
r_dihedral_angle_4_deg	21.796
r_dihedral_angle_3_deg	12.311
r_dihedral_angle_1_deg	6.804
r_lrange_it	2.684
r_lrange_other	2.684
r_scangle_it	2.002
r_scangle_other	2.001
r_angle_refined_deg	1.753
r_angle_other_deg	1.704
r_scbond_other	1.6
r_scbond_it	1.599
r_mcangle_other	1.594
r_mcangle_it	1.591
r_rigid_bond_restr	1.244
r_mcbond_it	1.157
r_mcbond_other	1.157
r_symmetry_nbd_refined	0.262
r_nbd_refined	0.228
r_xyhbond_nbd_refined	0.197
r_symmetry_nbd_other	0.193
r_nbtor_refined	0.173
r_nbd_other	0.145
r_symmetry_xyhbond_nbd_refined	0.14
r_chiral_restr	0.09
r_symmetry_nbtor_other	0.087
r_metal_ion_refined	0.074
r_gen_planes_refined	0.009
r_bond_refined_d	0.008
r_xyhbond_nbd_other	0.004
r_gen_planes_other	0.002
r_bond_other_d	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2064
Nucleic Acid Atoms
Solvent Atoms	270
Heterogen Atoms	34

Software

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