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PDB-4ll3
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Data
In this panel, some brief descriptions about the current data entry are shown.
Database-IDPDB-4ll3
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Components
In this panel, brief descriptions about each the component of this data entry are shown. To select a component in the viewer, push the corresponding select button. To select the elements with specific sequences, select the letters in the sequence box (shown only in Rich mode) by mouse dragging.
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Sequence colors: Alpha helix etc. Beta strand Turn Base pairing Unobserved or zero-occupancy Modified residues
Structural Sequence view
Sites
In this panel, Site information of this data entry are shown. To select a site or ligands in the viewer, push the corresponding "select" button.
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Functional Sequence view
View
This is the panel to control the manner of whole the viewer, such as the viewing orientation and the zoom level, etc. To control the style of the strucuture data, use the Style panel.
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Style
This is the panel to control the style of the structure data.To apply the style only to the specific elements, select the elements, beforehand.
Schemes

Small molecules

[All] Ball&Stick model, CPK color

[All] CPK model, CPK color

Ordinary proteins

[Protein/RNA/DNA] cartoon model, rainbow color by monomer / [Hetero atoms] 50%CPK model, CPK color

[Protein/RNA/DNA] backbone model, color by structure / [Hetero atoms] 50%CPK model, CPK color

Large complexes

[Protein/RNA/DNA] backbone model, color by chain / [Hetero atoms] CPK model, CPK color

[Protein] rocket model, color by chain / [DNA/RNA] chain-trace model, color by chain / [Hetero atoms] CPK model, CPK color

[All] CPK model / [Protein/RNA/DNA] color by chain / [Hetero atoms] CPK color

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Surface
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Command
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$ set ambientPercent 20; set diffusePercent 70;set specular ON; set specularPower 80; set specularExponent 5;set specularPercent 70;set antialiasDisplay ON; set antialiasTranslucent ON;set ribbonBorder ON;set PickCallback "_mousepick";set MessageCallback "_jmolmsg";set languageTranslation OFF;set chainCaseSensitive TRUE; define _nonpoly ligand or solvent or ((dna or rna) and hetero);define _carbon_etc (carbon | (*.P & ! ligand) | (backbone & (dna|rna)) );selectionHalos OFF;select all; cartoon ONLY; color chain; color (! _carbon_etc) CPK; select _nonpoly; wireframe 0.25; spacefill 33%; color CPK; select (unk and !sidechain); wireframe 0.3;cpk 0.3; backbone 200;hide water;select all;model all;slab off; set zshade on; set zshadepower 1; set zslab 60;set echo bottom left;font echo 18 serif bold; color echo blue;
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Surface
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Styles are applied only to current "selected" elements