2HE2

Crystal structure of the 3rd PDZ domain of human discs large homologue 2, DLG2

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1TP5	Swissmodel based upon the coordinates of pdb entries 1TP5, 1TP3, 1BFE and 1BE9.
experimental model	PDB	1TP3	Swissmodel based upon the coordinates of pdb entries 1TP5, 1TP3, 1BFE and 1BE9.
experimental model	PDB	1BFE	Swissmodel based upon the coordinates of pdb entries 1TP5, 1TP3, 1BFE and 1BE9.
experimental model	PDB	1BE9	Swissmodel based upon the coordinates of pdb entries 1TP5, 1TP3, 1BFE and 1BE9.

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		293	25.5% PEG 3350; 0.17M (NH4)2SO4; 15% glycerol , VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Properties
Matthews coefficient	Solvent content
2.23	44.81

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 56.155	α = 90
b = 56.07	β = 90
c = 60.472	γ = 90

Symmetry
Space Group	P 21 21 21

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	MARMOSAIC 225 mm CCD		2006-05-06	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SLS BEAMLINE X10SA	0.97646	SLS	X10SA

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	1.5	50	98.8				30918

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
	1.5	1.55	97.5

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	Number Reflections (All)	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	Swissmodel based upon the coordinates of pdb entries 1TP5, 1TP3, 1BFE and 1BE9.	1.5	41.13	29281	29281	1559	98.79	0.12987	0.12987	0.12686	0.18688	RANDOM	9.045

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]
-0.32			-0.03		0.35

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	32.522
r_dihedral_angle_4_deg	15.536
r_dihedral_angle_3_deg	11.168
r_sphericity_free	9.239
r_scangle_it	7.254
r_dihedral_angle_1_deg	5.921
r_scbond_it	5.844
r_sphericity_bonded	4.868
r_mcangle_it	4.512
r_mcbond_it	4.032
r_rigid_bond_restr	2.738
r_mcbond_other	2.556
r_angle_refined_deg	1.324
r_angle_other_deg	0.858
r_symmetry_vdw_other	0.377
r_symmetry_vdw_refined	0.264
r_nbd_refined	0.202
r_symmetry_hbond_refined	0.198
r_nbd_other	0.192
r_xyhbond_nbd_refined	0.182
r_nbtor_refined	0.169
r_nbtor_other	0.083
r_chiral_restr	0.079
r_bond_refined_d	0.01
r_gen_planes_refined	0.005
r_bond_other_d	0.003
r_gen_planes_other	0.002

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1546
Nucleic Acid Atoms
Solvent Atoms	367
Heterogen Atoms

Software

Software
Software Name	Purpose
REFMAC	refinement
PHASER	phasing