3BXJ

Crystal Structure of the C2-GAP Fragment of synGAP

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	hanging drop	4.9	298	80 mM ammonium sulfate, 11% PEG 3000, 0.1 M sodium phosphate/citrate, 0.1mM EDTA as additive, pH 4.9, hanging drop, temperature 298K

Crystal Properties
Matthews coefficient	Solvent content
2.83	56.49

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 113.32	α = 90
b = 113.32	β = 90
c = 166.09	γ = 120

Symmetry
Space Group	P 61

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray						M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID14-2	0.933	ESRF	ID14-2

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge 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	3	19.97	99.6	0.067	22.52			32876		-3	57.974

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	3	3.17	100		0.383	5.1

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 (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	3	19.97	32876	1644	100	0.246	0.244	0.23	0.289	0.28	RANDOM	39.426

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]
2.51	1.26		2.51		-3.77

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	39.828
r_dihedral_angle_3_deg	20.715
r_dihedral_angle_4_deg	16.797
r_dihedral_angle_1_deg	6.532
r_scangle_it	2.415
r_angle_refined_deg	1.551
r_scbond_it	1.538
r_angle_other_deg	0.993
r_mcangle_it	0.918
r_mcbond_it	0.777
r_symmetry_vdw_other	0.278
r_nbd_refined	0.245
r_symmetry_hbond_refined	0.228
r_symmetry_vdw_refined	0.211
r_nbd_other	0.196
r_nbtor_refined	0.191
r_xyhbond_nbd_refined	0.15
r_mcbond_other	0.102
r_nbtor_other	0.094
r_chiral_restr	0.085
r_xyhbond_nbd_other	0.029
r_bond_refined_d	0.015
r_gen_planes_refined	0.004
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	5491
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms

Software

Software
Software Name	Purpose
XSCALE	data scaling
EPMR	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction