2H0B | pdb_00002h0b

Crystal Structure of the second LNS/LG domain from Neurexin 1 alpha

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	8	294	10% P8000, 0.1M Tris, 5mM CaCl2, 1% glycerol, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 294K

Crystal Properties
Matthews coefficient	Solvent content
2.91	57.74

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 60.032	α = 78.47
b = 61.586	β = 78.74
c = 66.64	γ = 84.68

Symmetry
Space Group	P 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 210		2005-05-01	M	MAD
2	1
3	1

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	CHESS BEAMLINE F2	0.978952, 0.979338, 0.980111	CHESS	F2

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	2.1	40	96.6	0.072	11.3	3.6		51547

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	2.1	2.18	85.9		0.265		2.7	4563

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	MAD	THROUGHOUT	2.1	20	51492	2577	100	0.186	0.18607	0.184	0.185	0.233	0.2332	RANDOM	36.373

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]
1.21	3.82	-0.68	0.15	-0.71	-1.52

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	40.836
r_dihedral_angle_4_deg	20.045
r_dihedral_angle_3_deg	13.908
r_dihedral_angle_1_deg	7.085
r_scangle_it	3.005
r_scbond_it	2.014
r_angle_refined_deg	1.391
r_mcangle_it	1.042
r_mcbond_it	0.741
r_nbtor_refined	0.308
r_symmetry_hbond_refined	0.253
r_symmetry_vdw_refined	0.229
r_nbd_refined	0.217
r_xyhbond_nbd_refined	0.155
r_metal_ion_refined	0.133
r_chiral_restr	0.086
r_symmetry_metal_ion_refined	0.068
r_bond_refined_d	0.011
r_gen_planes_refined	0.005

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	5553
Nucleic Acid Atoms
Solvent Atoms	444
Heterogen Atoms	28

Software

Software
Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
SOLVE	phasing
DM	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction