5ARM | pdb_00005arm

APO-CSP3 (COPPER STORAGE PROTEIN 3) FROM METHYLOSINUS

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	3KAW	PDB ENTRY 3KAW

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1				40% PENTAERYTHRITOL PROPOXYLATE (5/4 PO/OH), 100 MM HEPES PH 7 AND 200 MM SODIUM THIOCYANATE

Crystal Properties
Matthews coefficient	Solvent content
1.95	37

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 45.17	α = 90
b = 105.5	β = 90
c = 45.07	γ = 90

Symmetry
Space Group	C 2 2 2

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	100	PIXEL	DECTRIS PILATUS 6M		2013-06-22	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I02		Diamond	I02

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	34.27	98.7	0.05	8.5	3.3		34091		2

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	99.1		0.44	2.2	3.2

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 3KAW	1.194	52.75	34049	1721	98.291	0.138	0.1365	0.15	0.171	0.18	RANDOM	15.938

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]
0.131			-0.062		-0.068

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	27.354
r_sphericity_free	20.388
r_dihedral_angle_4_deg	19.788
r_dihedral_angle_3_deg	14.549
r_sphericity_bonded	10.429
r_dihedral_angle_1_deg	4.094
r_scangle_it	3.476
r_rigid_bond_restr	3.426
r_scbond_it	2.902
r_mcangle_it	2.122
r_mcbond_it	2.042
r_angle_refined_deg	1.885
r_mcbond_other	1.731
r_angle_other_deg	1.108
r_nbd_refined	0.269
r_nbd_other	0.184
r_nbtor_refined	0.174
r_chiral_restr	0.114
r_xyhbond_nbd_refined	0.068
r_xyhbond_nbd_other	0.045
r_bond_refined_d	0.018
r_gen_planes_refined	0.01
r_bond_other_d	0.002
r_gen_planes_other	0.002
r_nbtor_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcangle_other
r_scbond_other
r_scangle_other
r_long_range_B_refined
r_long_range_B_other

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	942
Nucleic Acid Atoms
Solvent Atoms	82
Heterogen Atoms

Software

Software
Software Name	Purpose
REFMAC	refinement
iMOSFLM	data reduction
Aimless	data scaling
MOLREP	phasing