2OSN | pdb_00002osn

An alternate description of a crystal structure of phospholipase A2 from Bungarus caeruleus

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1G2X	The A chain of PDB entry 1G2X.

Crystallization

Crystal Properties
Matthews coefficient	Solvent content
2.39	48.52

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 57.104	α = 89.75
b = 57.104	β = 89.75
c = 57.104	γ = 89.75

Symmetry
Space Group	R 3 2

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray						M	SINGLE WAVELENGTH

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	Number Reflections (All)	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	transformed from 1G2X	THROUGHOUT	The A chain of PDB entry 1G2X.	2.5	30	4549	4441	203	99.64	0.217	0.216	0.213	0.216	0.288	0.2254	RANDOM	18.95

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]
	-0.1	-0.1		-0.1

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	44.915
r_dihedral_angle_4_deg	19.578
r_dihedral_angle_3_deg	17.374
r_dihedral_angle_1_deg	5.571
r_scangle_it	1.584
r_angle_refined_deg	1.123
r_scbond_it	0.98
r_mcangle_it	0.707
r_mcbond_it	0.379
r_nbtor_refined	0.295
r_nbd_refined	0.195
r_xyhbond_nbd_refined	0.191
r_symmetry_hbond_refined	0.171
r_symmetry_vdw_refined	0.16
r_chiral_restr	0.069
r_bond_refined_d	0.008
r_gen_planes_refined	0.003

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	897
Nucleic Acid Atoms
Solvent Atoms	32
Heterogen Atoms	3

Software

Software
Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction