5002 Protein Set - Page 9






9) Suspension-hand c Clsmp snd Clsmp Rod

Put Clamps to Clamp Rods at both ends to complete the Suspension-hands, which are devised to support the model in the frame for observing a completed model from all directions.

Clamp Bio-401-1
(New, rigld)		Clamp rod Bio-402
(New)		Clamp Bio-401-2
(New, swivel-joint)
Fig. 12

The clamp is colored at its wrist for uses as below.

  • Blue clamp (Bio-401-1) : Rigid type, useful to attach to frame side.
  • White clamp (Bio-401-2) : Freely swivels, useful to attach to model side.
  • Usage : Push the olamp towards the arm section of Atom piece (model side use), or the frame rod (frame side use), to grasp firmly.


To assemble a well balancsed model,select from PDB data about 2 equi-diatant grasping poits per 10 amino acid cains. Select atom coordinates, easy points to grasp, of the amino acid order 3rd & 8th (if otherwise, 2nd & 7th, or 4th & 9th). The clamp is to be set between atoms. Therafore serect 2 atoms and adjust the setting to the center between them. The model will be suspended from the orter frame rods. So those arms between atoms which are as much parallel to frame rod as possible are desirable.

When suspending the model from rods in the X-axis direction, select coordinates value, nearer to Y-coordinatates value, of 2 abjacent atoms of the peptide portion, For susepension from rods Y-axis, select the one nearer to X-coordinates. For suspension from rods Z-axis, select the one nearer to X and Y coordinates.

It will be conreient to treat the selected pairs of coordinates as shown in the Table Myoglobin-X, -Y, -Z. Numbers in Column C show distance (cm) from Model Origin to directons X, Y, Z axes and set Blue Clamp (Bio-401-1) of the Suspension hand at the above position. Numbers in Column C5 show distance from frame rod to center point between atoms, and set the White Clamp (Bio-401-2) at the middle point of the 2 atoms.

Myoglobin X
No. C1
X1 Y1 Z1		 C2
X2 Y2 Z2		 C3
X1-X2		 C4
(Y1-Y2)2 + (Z1-Z2)2
R1 004C
R2 004O
(R1+R2)/2		 7.5 11.4 35.6
8.5 11.7 35.6
7.9 11.55 35.6		 -5 20 45
-5 20 45
-5 20 45		 12.9159.76()
12.63

Myoglobin Y
No. C1
X1 Y1 Z1		 C2
X2 Y2 Z2		 C3
Y1-Y2		 C4
(X1-X2)2 + (Z1-Z2)2
R1 023N
R2 023CA
(R1+R2)/2		 31.5 19.2 26.2
31.9 17.9 25.5
31.7 18.55 25.85		 45 -5 45
45 -5 45
45 -5 45		 25.55543.6123.31

Myoglobin Z
No. C1
X1 Y1 Z1		 C2
X2 Y2 Z2		 C3
Z1-Z2		 C4
(X1-X2)2 + (Y1-Y2)2
R1 046C
R2 046C
(R1+R2)/2		 31.5 27.0 10.7
31.7 26.5 9.3
31.6 26.75 10.0		 45 20 -5
45 20 -5
45 20 -5		 1.5225.1215.00
Fig. 13
· Length adjustment of Clamp Rod
(Bio-402) : = Cut off the clamp rod just 5cm shorter than desired overall length of the Suspension-hand , and put clamps to both ends. Then, the desired length of the Suspension-hand will be obtained.

Fig. 14
· Nylon fishing line : = If the suspension-hands left in a completed model are unsightly or obstacles to you, exchange them for this nylon fishing line.

Clamp and clamp rod

Fig. 15



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