2WNG | pdb_00002wng

complete extracellular structure of human signal regulatory protein (SIRP) alpha

X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	2UV3	PDB ENTRIES 2UV3, 2AJR AND 1ED3
experimental model	PDB	2AJR	PDB ENTRIES 2UV3, 2AJR AND 1ED3
experimental model	PDB	1ED3	PDB ENTRIES 2UV3, 2AJR AND 1ED3

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	6.5		SITTING DROPS CONTAINING 100 NL SIRP (18.6 MG/ML) PLUS 100 NL PRECIPITANT (1.0 M TRI-SODIUM CITRATE, 0.1 M SODIUM CACODYLATE, PH 6.5) WERE EQUILIBRATED AT 20.5C AGAINST 95 UL RESERVOIRS OF PRECIPITANT. CRYSTALS WERE CRYO-PROTECTED BY A QUICK SWEEP THROUGH PERFLUOROPOLYETHER PFO-X125/03 (LANCASTER SYNTHESIS).

Crystal Properties
Matthews coefficient	Solvent content
2.85	56.9

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 47.41	α = 90
b = 84.37	β = 90
c = 98.86	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 CCD	MIRRORS	2007-01-27	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID14-2		ESRF	ID14-2

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	2.49	38.1	98.5	0.07	14.2	4.8		14246		-3	62.638

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	2.49	2.55	98.2		0.85	2	4.8

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 ENTRIES 2UV3, 2AJR AND 1ED3	2.49	27.05	14207	692	97.91	0.2212	0.2188	0.22	0.2714	0.29	RANDOM	62.71

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]
-11.72294167			-0.94041704		12.66335871

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2350
Nucleic Acid Atoms
Solvent Atoms	49
Heterogen Atoms	14

Software

Software
Software Name	Purpose
BUSTER-TNT	refinement
XDS	data reduction
XSCALE	data scaling
MOLREP	phasing

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.