2JJU | pdb_00002jju

Structure of human signal regulatory protein (sirp) beta

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	2UV3	PDB ENTRY 2UV3, CHAIN A

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1		7		400 NL 25 MG/ML SIRP BETA PLUS 50 NL RESERVOIR (2.5 M AMMONIUM SULPHATE, 0.1 M BIS-TRIS PROPANE PH 7.0) EQUILIBRATED AGAINST 95 UL OF RESERVOIR AT 20.5 C.

Crystal Properties
Matthews coefficient	Solvent content
2.2	43.5

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 32.166	α = 90
b = 65.172	β = 93.43
c = 58.113	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	MARRESEARCH	MIRRORS	2007-11-07	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE BM14		ESRF	BM14

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	1.19	50	100	0.06	36.3	8.7		76112		-3	10.7

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	1.19	1.21	99.7		0.57	3.3	6.6

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 (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	PDB ENTRY 2UV3, CHAIN A	1.19	32.11	72274	3809	99.9	0.14	0.139	0.15	0.157	0.17	RANDOM	11.37

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]
-0.51		-0.18	0.01		0.48

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	31.001
r_dihedral_angle_4_deg	14.157
r_dihedral_angle_3_deg	11.581
r_dihedral_angle_1_deg	6.253
r_scangle_it	5.574
r_scbond_it	4.454
r_mcangle_it	3.456
r_mcbond_it	2.887
r_angle_refined_deg	1.263
r_angle_other_deg	0.748
r_symmetry_vdw_other	0.268
r_symmetry_vdw_refined	0.215
r_nbd_other	0.202
r_nbd_refined	0.175
r_nbtor_refined	0.175
r_xyhbond_nbd_refined	0.126
r_symmetry_hbond_refined	0.123
r_nbtor_other	0.083
r_chiral_restr	0.074
r_bond_refined_d	0.008
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_mcbond_other
r_mcangle_other
r_scbond_other
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1661
Nucleic Acid Atoms
Solvent Atoms	343
Heterogen Atoms	7

Software

Software
Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHASER	phasing