2AT9 | pdb_00002at9

STRUCTURE OF BACTERIORHODOPSIN AT 3.0 ANGSTROM BY ELECTRON CRYSTALLOGRAPHY

ELECTRON CRYSTALLOGRAPHY

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Crystallization

Crystal Properties
Matthews coefficient	Solvent content
4.2	71

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 62.45	α = 90
b = 62.45	β = 90
c = 100	γ = 120

Symmetry
Space Group	P 3

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1

Data Collection

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Resolution (High)	Resolution (Low)	Cut-off Sigma (F)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (Observed)	R-Work (Depositor)	R-Free (Depositor)	R-Free Selection Details	Mean Isotropic B
ELECTRON CRYSTALLOGRAPHY		THROUGHOUT	3	8	1	6107	358	73.7	0.237	0.237	0.33	RANDOM	14.2

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]

RMS Deviations
Key	Refinement Restraint Deviation
x_dihedral_angle_d	25.9
x_angle_deg	1.7
x_improper_angle_d	1
x_bond_d	0.013
x_bond_d_na
x_bond_d_prot
x_angle_d
x_angle_d_na
x_angle_d_prot
x_angle_deg_na
x_angle_deg_prot
x_dihedral_angle_d_na
x_dihedral_angle_d_prot
x_improper_angle_d_na
x_improper_angle_d_prot
x_mcbond_it
x_mcangle_it
x_scbond_it
x_scangle_it

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1721
Nucleic Acid Atoms
Solvent Atoms	2
Heterogen Atoms	500

Software

Software
Software Name	Purpose
X-PLOR	model building
X-PLOR	refinement
X-PLOR	phasing

Sample
Bacteriorhodopsin

Specimen Preparation
Sample Aggregation State	2D ARRAY
Embedding Material	trehalose
Embedding Details	3% (w/v) trehalose

3D Reconstruction
Reconstruction Method	CRYSTALLOGRAPHY
Number of Particles
Reported Resolution (Å)	3
Resolution Method	DIFFRACTION PATTERN/LAYERLINES
Other Details
Refinement Type
Symmetry Type

Data Acquisition
Detector Type	GENERIC GATAN	KODAK SO-163 FILM
Electron Dose (electrons/Å**2)	10	30

Imaging Experiment	1	2
Date of Experiment
Temperature (Kelvin)
Microscope Model	JEOL 4000	JEOL 3000SFF
Minimum Defocus (nm)
Maximum Defocus (nm)
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS
Imaging Mode	DIFFRACTION	BRIGHT FIELD
Specimen Holder Model
Nominal Magnification
Calibrated Magnification
Source	FIELD EMISSION GUN	FIELD EMISSION GUN
Acceleration Voltage (kV)
Imaging Details

EM Software
Task	Software Package	Version
CRYSTALLOGRAPHY MERGING	LATLINE
CRYSTALLOGRAPHY MERGING	CCP4 package
OTHER	MRC package
MODEL FITTING	O
MODEL REFINEMENT	X-PLOR