2G2L

Crystal Structure of the Second PDZ Domain of SAP97 in Complex with a GluR-A C-terminal Peptide

X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	8.5	293	0.2M SODIUM ACETATE, 0.1M TRIS-HCL, 30% PEG 4000 , pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Properties
Matthews coefficient	Solvent content
1.97	37.5

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 34.76	α = 90
b = 54.44	β = 93.95
c = 55.14	γ = 90

Symmetry
Space Group	P 1 21 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	ADSC QUANTUM 4		2004-11-08	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID14-1	0.934	ESRF	ID14-1

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (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	2.35	50	97.5			8429	8429

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
	2.35	2.45	96.6

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-Factor (Observed)	R-Work	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	1PDR	2.35	38.63	8005	422	100	0.22196	0.22196	0.21823	0.29461	RANDOM	45.075

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]
3.46		5.83	-1.86		-0.79

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	42.595
r_dihedral_angle_3_deg	18.4
r_dihedral_angle_1_deg	7.116
r_scangle_it	3.56
r_scbond_it	2.188
r_angle_refined_deg	1.782
r_mcangle_it	1.651
r_mcbond_it	0.955
r_nbtor_refined	0.314
r_symmetry_vdw_refined	0.262

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	42.595
r_dihedral_angle_3_deg	18.4
r_dihedral_angle_1_deg	7.116
r_scangle_it	3.56
r_scbond_it	2.188
r_angle_refined_deg	1.782
r_mcangle_it	1.651
r_mcbond_it	0.955
r_nbtor_refined	0.314
r_symmetry_vdw_refined	0.262
r_nbd_refined	0.257
r_xyhbond_nbd_refined	0.155
r_chiral_restr	0.11
r_symmetry_hbond_refined	0.053
r_bond_refined_d	0.017
r_gen_planes_refined	0.006

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1322
Nucleic Acid Atoms
Solvent Atoms	44
Heterogen Atoms

Software

Software
Software Name	Purpose
REFMAC	refinement
ProDC	data collection
XDS	data scaling
MOLREP	phasing

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.