6LV8

Ni- Carbonic Anhydrase II pH 11.0 20 atm CO2

X-RAY DIFFRACTION

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Starting Model(s)

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

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	11	293	1.3 M sodium citrate, 50 mM Tris-HCl

Crystal Properties
Matthews coefficient	Solvent content
2.1	41.41

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 42.419	α = 90
b = 41.398	β = 104.04
c = 72.191	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	CCD	ADSC QUANTUM 270		2019-12-17	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	PAL/PLS BEAMLINE 7A (6B, 6C1)	0.9793	PAL/PLS	7A (6B, 6C1)

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	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	1.2	30	96.1	0.047	0.051	0.019	0.998	40.6	7.5		73282

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	Rpim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.2	1.22	93		0.227	0.244	0.09	0.975	10.1	7.3

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	5YUK	1.2	30	73217	3748	96.09	0.113	0.1121	0.1364	11.329

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]
-0.121		-0.024	0.019		0.101

RMS Deviations
Key	Refinement Restraint Deviation
r_sphericity_free	50.339
r_dihedral_angle_2_deg	34.886
r_dihedral_angle_4_deg	23.356
r_sphericity_bonded	12.299
r_dihedral_angle_3_deg	11.544
r_dihedral_angle_1_deg	7.032
r_rigid_bond_restr	6.084
r_lrange_it	4.717
r_lrange_other	3.981
r_scangle_other	3.854
r_scangle_it	3.852
r_mcangle_other	3.546
r_mcangle_it	3.521
r_mcbond_it	3.064
r_scbond_other	2.869
r_scbond_it	2.866
r_angle_refined_deg	2.352
r_mcbond_other	2.033
r_angle_other_deg	1.247
r_symmetry_nbd_refined	0.308
r_nbd_other	0.3
r_nbd_refined	0.29
r_symmetry_xyhbond_nbd_refined	0.231
r_symmetry_nbd_other	0.203
r_chiral_restr	0.194
r_nbtor_refined	0.185
r_metal_ion_refined	0.177
r_xyhbond_nbd_refined	0.138
r_symmetry_nbtor_other	0.084
r_bond_refined_d	0.028
r_gen_planes_refined	0.014
r_gen_planes_other	0.004
r_bond_other_d	0.003
r_symmetry_xyhbond_nbd_other	0.003

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2049
Nucleic Acid Atoms
Solvent Atoms	346
Heterogen Atoms	15

Software

Software
Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling
REFMAC	phasing