1PZK

Cholera Toxin B-Pentamer Complexed With N-Acyl Phenyl Galactoside 9h

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	3CHB

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	7.3	298	36% PEG 550 MME, 50 mM NaCl, 100 mM Tris pH 7.3, VAPOR DIFFUSION, SITTING DROP, temperature 298K

Crystal Properties
Matthews coefficient	Solvent content
1.87	33.7

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 102.048	α = 90
b = 66.137	β = 105.78
c = 78.185	γ = 90

Symmetry
Space Group	C 1 2 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	SBC-2		2002-08-17	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	APS BEAMLINE 19-ID	0.97945	APS	19-ID

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Sym I (Observed)	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	1.35	50	95.5	0.054	22.1	3.14	104310	104310			13.578

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R-Sym I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
	1.35	1.4	68.4		0.402	1.86	1.4	7413

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	Number Reflections (All)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (All)	R-Factor (Observed)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	3CHB	1.35	33.52	104310	99104	5202	95.39	0.13389	0.13389	0.13185	0.19	0.17347	0.22	RANDOM	8.13

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]
-0.1		-0.05	0.02		0.05

RMS Deviations
Key	Refinement Restraint Deviation
r_sphericity_free	16.123
r_dihedral_angle_1_deg	6.924
r_scangle_it	5.694
r_sphericity_bonded	5.081
r_scbond_it	4.209
r_mcangle_it	3.117
r_mcbond_it	2.338
r_angle_refined_deg	1.626
r_rigid_bond_restr	1.618
r_angle_other_deg	1.381
r_symmetry_vdw_other	0.353
r_nbd_other	0.276
r_symmetry_vdw_refined	0.276
r_symmetry_hbond_refined	0.229
r_nbd_refined	0.227
r_xyhbond_nbd_refined	0.165
r_chiral_restr	0.112
r_nbtor_other	0.104
r_gen_planes_other	0.014
r_bond_refined_d	0.013
r_gen_planes_refined	0.011
r_bond_other_d	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	4095
Nucleic Acid Atoms
Solvent Atoms	630
Heterogen Atoms	121

Software

Software
Software Name	Purpose
REFMAC	refinement
TRUNCATE	data reduction
XTALVIEW	refinement
HKL-2000	data collection
HKL-2000	data reduction
CCP4	data scaling