9GQ1 | pdb_00009gq1

CSP1 H36A

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	Other		in house

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		293.15	0.1 M Tris-Bicine pH 8.5 plus 12.5% v/v 2-methyl-2,4 pentanediol (racemic), 12.5% w/v PEG 1000, 12.5% w/v PEG 3350, 0.03 M sodium fluoride, 0.03 M sodium bromide and 0.03 M sodium iodide

Crystal Properties
Matthews coefficient	Solvent content
2.32	47

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 93.214	α = 90
b = 42.26	β = 91.084
c = 53.026	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 PILATUS 6M		2017-07-05	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I04	1.37471	Diamond	I04

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	1.3	51.47	100	0.057	0.062	0.024	0.999	16.5	12.9		61289

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)
	1.3	1.32	100		2.232	2.42	0.931	0.486	1.2	13.1

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	FREE R-VALUE	1.9	38.488	16291	887	98.889	0.176	0.1736	0.1868	0.2239	0.2368	36.726

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]
-3.731		-0.628	4.37		-0.614

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	17.32
r_dihedral_angle_3_deg	15.911
r_lrange_other	9.618
r_lrange_it	9.57
r_scangle_it	8.209
r_scangle_other	8.205
r_mcangle_other	5.774
r_mcangle_it	5.736
r_scbond_it	5.559
r_scbond_other	5.535
r_dihedral_angle_2_deg	5.392
r_dihedral_angle_1_deg	5.133
r_mcbond_it	4.302
r_mcbond_other	4.186
r_angle_refined_deg	2.165
r_angle_other_deg	0.849
r_metal_ion_refined	0.222
r_nbd_refined	0.221
r_symmetry_xyhbond_nbd_refined	0.168
r_nbtor_refined	0.165
r_symmetry_nbd_other	0.16
r_symmetry_nbd_refined	0.145
r_xyhbond_nbd_refined	0.132
r_chiral_restr	0.125
r_nbd_other	0.122
r_symmetry_nbtor_other	0.07
r_ncsr_local_group_1	0.068
r_bond_refined_d	0.012
r_gen_planes_refined	0.009
r_gen_planes_other	0.003
r_bond_other_d	0.002

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1562
Nucleic Acid Atoms
Solvent Atoms	88
Heterogen Atoms	24

Software

Software
Software Name	Purpose
REFMAC	refinement
REFMAC	refinement
Aimless	data scaling
Coot	model building
xia2	data reduction
DIALS	data reduction