3K7R | pdb_00003k7r

Crystal structure of [TM][CuAtx1]3

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1CC8	PDB ENTRY 1CC8

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	EVAPORATION	7	287	0.15 M DL-Malic acid, pH 7.0, 20% PEG 3350, EVAPORATION, temperature 287K

Crystal Properties
Matthews coefficient	Solvent content
2.67	53.96

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 109.887	α = 90
b = 182.242	β = 90
c = 52.722	γ = 90

Symmetry
Space Group	P 21 21 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	CCD	ADSC QUANTUM 210			M	MAD
2	1	x-ray		M	SINGLE WAVELENGTH
1,2	1

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	APS BEAMLINE 17-ID	1.3799, 1.3805, 1.3850	APS	17-ID
2	SYNCHROTRON	APS BEAMLINE 19-BM	0.9787	APS	19-BM

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	2.28	50	97	0.081	16.7	5		47445

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	2.28	2.38	84		0.47	2	2.9	3998

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 and MAD	THROUGHOUT	PDB ENTRY 1CC8	2.28	37.42	44981	2404	96.17	0.2045	0.20174	0.2005	0.25612	0.2568	RANDOM	26.464

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]
0.2			-0.24		0.04

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	46.147
r_dihedral_angle_4_deg	27.579
r_dihedral_angle_3_deg	17.473
r_dihedral_angle_1_deg	6.875
r_scangle_it	3.976
r_scbond_it	2.486
r_angle_refined_deg	1.758
r_mcangle_it	1.335
r_mcbond_it	0.728
r_chiral_restr	0.116
r_bond_refined_d	0.02
r_gen_planes_refined	0.008

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	6740
Nucleic Acid Atoms
Solvent Atoms	363
Heterogen Atoms	54

Software

Software
Software Name	Purpose
HKL-2000	data collection
PHASER	phasing
SHARP	phasing
autoSHARP	phasing
REFMAC	refinement
DENZO	data reduction
HKL-2000	data scaling