7PE5 | pdb_00007pe5

Crystal structure of Lymnaea stagnalis Acetylcholine-binding protein (Ls-AChBP) Q55R/M114V double mutant complexed with Triflumezopyrim

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1UV6

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		293	14-18% PEG3350, 0.1-0.25M diammonium hydrogen citrate, 15% glycerol

Crystal Properties
Matthews coefficient	Solvent content
2.32	46.99

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 74.082	α = 90
b = 74.082	β = 90
c = 348.971	γ = 120

Symmetry
Space Group	P 65

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		2014-08-04	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I02	0.97949	Diamond	I02

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	2.1	63.179	99.5	0.095	0.101	0.033	0.996	10	9.6		62500

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	2.1	2.15	98.9		1.627	1.72	0.552	0.816	1.6	9.7

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 (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	1UV6	2.1	63.179	62459	3231	99.465	0.207	0.206	0.21	0.2285	0.24	64.838

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]
1.308	0.654		1.308		-4.244

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	28.696
r_dihedral_angle_4_deg	21.994
r_dihedral_angle_3_deg	16.518
r_lrange_it	9.216
r_lrange_other	9.215
r_dihedral_angle_1_deg	7.575
r_scangle_it	6.99
r_scangle_other	6.99
r_mcangle_it	5.409
r_mcangle_other	5.408
r_scbond_it	4.556
r_scbond_other	4.555
r_mcbond_other	3.725
r_mcbond_it	3.724
r_angle_refined_deg	1.807
r_angle_other_deg	1.353
r_symmetry_nbd_refined	0.346
r_nbd_other	0.32
r_symmetry_xyhbond_nbd_refined	0.203
r_nbd_refined	0.194
r_symmetry_nbd_other	0.193
r_nbtor_refined	0.169
r_xyhbond_nbd_refined	0.113
r_ncsr_local_group_7	0.1
r_ncsr_local_group_4	0.098
r_ncsr_local_group_1	0.089
r_ncsr_local_group_6	0.089
r_ncsr_local_group_5	0.087
r_ncsr_local_group_2	0.086
r_ncsr_local_group_9	0.084
r_symmetry_nbtor_other	0.083
r_ncsr_local_group_3	0.083
r_ncsr_local_group_10	0.081
r_ncsr_local_group_8	0.08
r_chiral_restr	0.075
r_bond_refined_d	0.013
r_gen_planes_refined	0.009
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	7969
Nucleic Acid Atoms
Solvent Atoms	13
Heterogen Atoms	145

Software

Software
Software Name	Purpose
REFMAC	refinement
DIALS	data reduction
DIALS	data scaling
MOLREP	phasing