Electron Microscopy Lab

CM200 Magnification Calibration

Magnification Table prepared by Andrea Nans (04/2007) after objective lens change. Calibrations correspond to Angstrom/pixel for 1kx1k Gatan 794 CCD camera. Purple values were obtained using negatively stained catalase crystals and yellow values were obtained using a square diffraction grating.

Magnification Table prepared by Wanzhong He (11/13/2001)
Calibrations correspond to Angstrom/pixel for 1kx1k Gatan 794 CCD camera

Mode MAG FINAL   GOLD   SCALE G-CALC. ROT GR/Si   LHC  
LM 25 7529.04 GRS 7536.09 GS 1.271 7176 -3 7529.04 GRS    
LM 33 5923.06 GRS 5928.6 GS 1.323 5436 0 5923.06 GRS    
LM 43 4476.23 GRS 4480.42 GS 1.397 4172 -2 4476.23 GRS    
LM 57 3203.91 GRS 3207.17 GS 1.314 3147 145 3203.91 GRS    
LM 75 2438.84 GRS 2441.53 GS 1.306 2392 140 2438.84 GRS    
LM 100 1866.84 GRS 1868.74 GS 1.285 1794 141 1866.84 GRS    
LM 130 1453.36 GR 1454.84 GS 1.351 1380 133 1453.36 GR    
LM 170 1069.01 GR 1077.26 GS 1.263 1055.29 115 1069.01 GR    
LM 220 850.41 GR 852.91 GS 1.372 815.45 113 850.41 GR    
LM 290 631.52 GR 630.01 GS 1.325 618.62 93 631.52 GR    
LM 380 472.95 GR 475.33 GS 1.346 472.1 71 472.95 GR    
LM 500 356.87 GR 353.15 GS 1.297 358.8 44 356.87 GR    
LM 660 274.25 GR 272.3 GS 1.294 283.33 45 274.25 GR    
LM 870 213.22 GR 210.42 GS 1.317 206.21 48 213.22 GR    
LM 1150 161.71 GR 159.76 GS 1.283 162.6 37 161.71 GR    
LM 1500 126.07 GR 124.49 GS 1.054 119.6 27 126.07 GR    
M 1500 120.15 GR 118.29 GS 1.31 119.6 -35 120.15 GR 119.5 LHCS
M 2000 90.91 GR 90.29 GS 1.358 89.7 -42 90.91 GR 90.57 LHCS
M 2750 67.31 GR 66.47 GS 1.367 65.24 -56 67.31 GR 67.32 LHCS
SA 3800 48.62 GS 48.62 GS 1.348 47.21 -75 49.47 GR 48.88 LHC
SA 5000 36.07 GS 36.07 GS 1.342 35.88 -94 36.89 GR 36.3 LHC
SA 6600 26.87 GS 26.87 GS 1.333 27.18 -77 27.58 GR 27.12 LHC
SA 8800 20.14 GS 20.14 GS 1.285 22.42 -74 20.93 GR 20.52 LHC
SA 11500 15.67 GS 15.67 GS 1.309 15.6 -74 16.21 GR 16.028 LHC
SA 15000 11.97 GS 11.97 GS 1.343 11.96 -81     12.266 LHC
SA 20000 8.914 GS 8.914 GS 1.359 8.97 -92     9.322 LHC
SA 27500 6.544 GS 6.544 GS 1.409 6.52 -118     6.94 LHC
SA 38000 4.654 GS 4.654 GS 1.281 4.72 69     4.886 LHC
SA 50000 3.633 GS 3.633 GS 1.33 3.59 66     3.811 LHC
SA 66000 2.731 GS 2.731 GS 1.332 2.72 56        
SA 88000 2.05 GS 2.05 GS 1.333 2.04 37        
SA 115000 1.523 Si 1.538 GS 1.316 1.56 31 1.523 Si    
SA 150000 1.157 Si 1.17 GS 1.296 1.2 17 1.157 Si    
SA 200000 0.902 Si 0.894 G 1.254 0.9 -2 0.902 Si    
SA 250000 0.72 G 0.72 G   0.72 -25 0.731 Si    
SA 310000 0.567 G 0.567 G   0.58 -41 0.581 Si    
SA 390000 0.46 G 0.46 G   0.46 -78 0.462 Si    
M 540000 0.334 G 0.334 G   0.33 -98 0.335 Si    
M 750000 0.247 G 0.247 G   0.24 -150 0.245 Si    

Notes:
  1) 3800 - 390000 SA mode; 2750 - 1500 M ; 1500 - 25 LM;
  2) G      means calibrated with gold rings(0.236nm,0.204nm,0.144nm)
  3) GS     means using higher magnification gold ring calibrated
            image's distance between two seperated small gold particles
            along the diagonal(about 1200pixel) as a SCALE.
  4) G-CALC. calculated results from 390KX gold calibrated result with
            fomula:
             G-CALC = (390000*0.46)/current_magnifcication
  5) LHC    LHC lattice calibrated (a=12.95nm; a*=1/112.15029A-1/)
  6) LHCS   means using higher magnification LHC lattice calibrated
            image's distance between two seperated small features
            along the diagonal(about 1200pixel) as a scale.
  7) GR     calibrated with Diffraction Grating Replica
            Cat#203(2160lines/mm).
  8) GRS    means using higher magnification GR calibrated.
            mage's distance between two seperated small gold particles
            long the diagonal(about 1200pixel) as a scale.
  9) Si     Calibrated with Si(111) lattice (d=0.3135428nm).
  10) C3     different GS or L calibrated results
  11) ROT    rotating angle from CCD's Y-Axis to tilt_axis(degree) for
            different magnification(clockwise postive).
  12) SCALE  measured the distances between two fiducial marks along the
            diagonal for adjacent Magnifications,then calculates the SCALE:
            SCALE = D_Hi_Mag/D_Lo_Mag
            e.g.: D_Mag_6600 = 1374.64 pixel, D_Mag_5000 = 1033.44 pixel,
                  SCALE = 1374.64/1033.44 = 1.330 (close to 6600/5000=1.32).
  13)FINAL   final calibration results(balanced for different calibrating
            samples and for different magnifications).
LHC results indicate shrinkage of LHC lattice in negative stain between 0.5 and 5%

Calibration by Bill Rice (10/99)
used LHC crystals assuming 129.5 A lattice
pictures on film - optical diffraction using 14.5 mm reciprocal spacing for 0.1 mm real spacing
50,000 -> 52,100

First Calibration by Peijun Zhang (~1997)

Md, On Scope
(Main screen down)
Mu, On Scope/film
(Main screen up)
MCCD, On CCD
(Main screen up)
Mfilm
(Read from films)
MCCD/Mu Mfilm/Mu
17.5k 20.0k 27,922 21,047 1.40 1.05
24.5k 27.5k 37,157 28,618 1.35 1.04
34.0k 38.0k 51,352 38,610 1.35 1.02
44.0k 50.0k 66,278 49,489(51.3k*) 1.33 0.99
58.0k 66.0k 87,813 65,767 (68.6k*) 1.33 1.00
78.0k 88.0k 115,335 88,688 1.31 1.01
100k 115k 156,841 120k* 1.36 1.04
135k 150k 206,070 N/A 1.37 N/A
175k 200k 266,586 N/A 1.33 N/A
220k 250k 312,085 N/A 1.25 N/A
275k 310k 406,012 318,187 1.31 1.03
350k 390k 509,531(543.8k* ) 402,159 1.31 1.03
480k 540k 700,157(772.1k* ) 564,871 1.30 1.05
660k 750k 962,432 755,282 1.28 1.01

* (not sure why these were modified)
Calibrated under the following conditions:
(1) Au (111) ring [2.35 Å d-spacing] was used (also LHC crystals)
(2) CCD pixel size = 24.8 micron. {[mag on CCD] / [mag on CM200]} = 1.4.
(3) Optical diffraction was used for film calibration, a 14.5mm distance on diffraction pattern corresponds a 0.1mm spacing.

Dividing Mccd/Mfilm  will give mag factor of CCD camera relative to film
for 17.5k - 100k, average is 1.319 SD=0.017
for 275k - 660k,  average is 1.264 SD=0.017
Don't know why there is a discrepancy.  Maybe higher defocus + beam convergence for lower mags

CM200 Info Bank
Basic Procedures
Magnification
Defocus Calibration
CCD Response
Faraday Cage
Problems & Solutions
Spot-scan problem
Stokes CM200 Notes
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