3I35 | pdb_00003i35

Human SH3 domain of protein LASP1

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	6.5	293	1.6M tri-Na citrate dihydrate, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Properties
Matthews coefficient	Solvent content
1.99	38.15

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 25.348	α = 90
b = 23.235	β = 92.47
c = 44.716	γ = 90

Symmetry
Space Group	P 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	CCD	RAYONIX MX-225	mirrors	2009-05-07	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	BESSY BEAMLINE 14.1	0.97780	BESSY	14.1

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	R Sym 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	1.4	40.5	27	0.063	0.063	14.7			11077	5.4	5.3

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	R-Sym I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.4		39		0.505	0.505			742

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-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	1.4	23.24	9922	523	100	0.20328	0.20328	0.20222	0.23	0.22243	0.24	RANDOM	12

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]
0.07			-0.29		0.22

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	29.841
r_dihedral_angle_4_deg	21.157
r_dihedral_angle_3_deg	10.715
r_dihedral_angle_1_deg	6.186
r_scangle_it	3.357
r_scbond_it	2.544
r_mcangle_it	1.623
r_angle_refined_deg	1.495
r_mcbond_it	1.215
r_angle_other_deg	1.009
r_symmetry_hbond_refined	0.393
r_mcbond_other	0.316
r_symmetry_vdw_other	0.311
r_symmetry_vdw_refined	0.252
r_xyhbond_nbd_refined	0.244
r_nbd_refined	0.239
r_nbd_other	0.206
r_nbtor_refined	0.183
r_chiral_restr	0.111
r_nbtor_other	0.087
r_bond_refined_d	0.016
r_bond_other_d	0.014
r_gen_planes_refined	0.007
r_gen_planes_other	0.002
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	446
Nucleic Acid Atoms
Solvent Atoms	36
Heterogen Atoms

Software

Software
Software Name	Purpose
RAYONICS	data collection
MOLREP	phasing
REFMAC	refinement
XDS	data reduction
XSCALE	data scaling