9BLP | pdb_00009blp

T450S mutant of repeat domain 2 from Clostridium perfringens adhesin CPE0147 with intramolecular ester bond

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	4NI6

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		291	0.2 M sodium thiocyanate and 20% PEG 3350

Crystal Properties
Matthews coefficient	Solvent content
2.17	43.28

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 54.907	α = 90
b = 44.166	β = 110.107
c = 64.704	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	PIXEL	DECTRIS EIGER2 S 9M		2015-10-05	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	AUSTRALIAN SYNCHROTRON BEAMLINE MX1	0.953700	Australian Synchrotron	MX1

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (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	1.2	17.86	97.7	0.018	0.999	20.2	7.1		44396

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	Rpim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.2	1.22	93.9		0.186	0.947	3.8	6.8

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)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	1.2	17.86	44395	2117	97.449	0.143	0.142	0.1432	0.1584	0.1585	random selection	13.799

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]
0.042		0.018	-0.019		-0.029

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	45.761
r_dihedral_angle_3_deg	10.488
r_dihedral_angle_4_deg	7.984
r_dihedral_angle_1_deg	6.892
r_lrange_it	2.362
r_lrange_other	1.945
r_angle_other_deg	1.403
r_scangle_it	1.393
r_scangle_other	1.392
r_angle_refined_deg	1.336
r_scbond_other	1.08
r_scbond_it	1.075
r_mcangle_it	1.014
r_mcangle_other	1.013
r_rigid_bond_restr	0.719
r_mcbond_it	0.704
r_mcbond_other	0.702
r_nbd_refined	0.281
r_nbd_other	0.186
r_symmetry_nbd_other	0.184
r_symmetry_nbd_refined	0.16
r_nbtor_refined	0.15
r_xyhbond_nbd_refined	0.099
r_symmetry_xyhbond_nbd_refined	0.098
r_metal_ion_refined	0.084
r_symmetry_nbtor_other	0.078
r_chiral_restr	0.063
r_bond_refined_d	0.007
r_gen_planes_refined	0.005
r_gen_planes_other	0.002
r_bond_other_d	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1072
Nucleic Acid Atoms
Solvent Atoms	197
Heterogen Atoms	6

Software

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