pdbAtomSection

pdbAtomSection is Eos's Command that cuts out section from Atoms Model, and outputs to ps file.

List of option

Main option

Option	Essential/Optional	Description	Default
-i	Essential	Input: PDB	NULL
-if	Optional	Input: ASCII(FlagsFile)	NULL
-o	Essential	Output: psfile	NULL
-dist	Optional	Distance of Sections	2.5
-zmin	Optional	z min	0.0
-zmax	Optional	z max	90.0
-fm	Optional	flag mode	13
-r	Optional	radius	1.0
-clw	Optional	Width of Circle	0.1
-plw	Optional	Width of Peptide bond	0.1
-fontsize	Optional	font size	2.0
-AS	Optional	absolute scale of PS file (-AS 1 := 1 mm/A)	1.0
-shiftx	Optional	pdb Shift x [A]	0.0
-shifty	Optional	pdb Shift y [A]	0.0
-shiftz	Optional	pdb Shift z [A]	0.0
-c	Optional	ConfigurationFile	NULL
-m	Optional	Mode	0
-h	Optional	Help

-m details

Value	Description
0

-fm details

Value	Description
0	display nothing
1	one char amino acid name
2	three char amino acid name
4	chain identifier
8	sequence number
16	display any atom

-if format

chainIdertifier&sequenceNumber(R123) FlagMode circleRedius circlelinewidth fontsize

Execution example

Input file image

Gravity Centre(CA)

Atom far from Centre(CA)

Atom far from Centre(CA, Axis)

6.053012e+00 2.519590e+01 1.189075e+01

3.286664e+01

24.77 23.85 28.04

Example of options only essential


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Option -AS

Case: AS=5


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In the following, Setting at AS=5

Option -shiftx

Case: shiftx=10


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In the following, Setting at shiftx=10

Option -shifty

Case: shifty=10


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Option -shiftz

Case: shiftz=1


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Option -dist

Case: dist=3


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Option -zmin

Case: zmin=1


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Option -zmax

Case: zmax=15


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Option -r

Case: r=0.5


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Option -plw

Case: plw=0.3


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Option -fontsize

Case: fontsize=1


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Option -fm

Case: fm=0


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Case: fm=1


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Case: fm=2


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Case: fm=4


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Case: fm=8


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Case: fm=16


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Option -if

-if 's data

A28 0 2.0 0.3 2
A147 1 0.5 0.3 4
A114 2 1.0 0.3 1
A128 4 1.0 0.3 4
A8 8 1.0 0.3 4
A56 16 0.5 0.3 4
A39 31 0.7 0.3 3

Output


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