8CDX | pdb_00008cdx

Human carbonic anhydrase I complexed with 4-(3-ethylureido)benzenesulfonamide

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1JV0

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP		296	28-31% PEG4000, 0.2 M Sodium acetate, 0.1 M Tris pH 8.5-9.0

Crystal Properties
Matthews coefficient	Solvent content
2.32	47.07

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 62.27	α = 90
b = 70.98	β = 90
c = 121.58	γ = 90

Symmetry
Space Group	P 21 21 21

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		2021-06-03	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ELETTRA BEAMLINE 11.2C	0.9718	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	1.33	46.85	99.9	0.216	0.225	0.999	16.93	12		122663

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	1.33	1.37	98.7		0.839	2.34	8.6

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	1.335	46.85	122659	6144	99.875	0.143	0.1415	0.15	0.1794	0.19	18.352

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]
-0.23			0.723		-0.493

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	36.241
r_dihedral_angle_4_deg	18.542
r_dihedral_angle_3_deg	13.192
r_dihedral_angle_1_deg	7.194
r_rigid_bond_restr	4.716
r_scangle_it	4.401
r_scangle_other	4.4
r_lrange_it	4.076
r_lrange_other	4.076
r_scbond_it	3.995
r_scbond_other	3.995
r_mcangle_other	2.593
r_mcangle_it	2.59
r_mcbond_it	2.332
r_mcbond_other	2.328
r_angle_refined_deg	2.037
r_angle_other_deg	1.589
r_nbd_refined	0.216
r_nbd_other	0.208
r_symmetry_nbd_other	0.196
r_symmetry_nbd_refined	0.191
r_nbtor_refined	0.176
r_symmetry_xyhbond_nbd_refined	0.157
r_xyhbond_nbd_refined	0.129
r_chiral_restr	0.12
r_symmetry_nbtor_other	0.09
r_metal_ion_refined	0.077
r_bond_refined_d	0.017
r_gen_planes_refined	0.013
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	4032
Nucleic Acid Atoms
Solvent Atoms	504
Heterogen Atoms	34

Software

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