2I26

Crystal structure analysis of the nurse shark new antigen receptor ancestral variable domain in complex with lysozyme

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	7.8	295	11% PEG 4000, 1.8M ammonium sulfate, 0.1M BES, pH 7.8, VAPOR DIFFUSION, SITTING DROP, temperature 295K

Crystal Properties
Matthews coefficient	Solvent content
2.01	38.68

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 64.3	α = 90
b = 64.694	β = 90
c = 159.876	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	ADSC QUANTUM 210		2005-10-21	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ALS BEAMLINE 8.2.1	1.0	ALS	8.2.1

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (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	2.5	45.64	98.1	0.087	8.7	2.8	23397	23397		-3	36.1

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R-Sym I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.5	2.54	97.3		0.546	2.9	2.9	3186

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Resolution (High)	Resolution (Low)	Number Reflections (All)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (Observed)	R-Work	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	2.5	45.64	22228	22228	1129	100	0.20381	0.1994	0.2915	RANDOM	25.499

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]
-3.37			3.07		0.31

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	35.132
r_dihedral_angle_4_deg	19.337
r_dihedral_angle_3_deg	18.226
r_dihedral_angle_1_deg	7.498
r_scangle_it	3.082
r_scbond_it	2.066
r_angle_refined_deg	1.846
r_mcangle_it	1.204
r_angle_other_deg	1.038
r_mcbond_it	0.912
r_symmetry_vdw_other	0.234
r_symmetry_hbond_refined	0.232
r_nbd_refined	0.229
r_nbd_other	0.211
r_nbtor_refined	0.19
r_mcbond_other	0.183
r_xyhbond_nbd_refined	0.175
r_symmetry_vdw_refined	0.16
r_chiral_restr	0.104
r_nbtor_other	0.091
r_bond_refined_d	0.02
r_gen_planes_refined	0.006
r_bond_other_d	0.002
r_gen_planes_other	0.001
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	5668
Nucleic Acid Atoms
Solvent Atoms	112
Heterogen Atoms	30

Software

Software
Software Name	Purpose
REFMAC	refinement
Blu-Ice	data collection
AMoRE	phasing