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RcsbFv3DAssembly._internal_.Symmetry.html

RcsbFv3DAssembly._internal_.Symmetry.html 54 KB
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  1. <!DOCTYPE html><html class="default"><head><meta charSet="utf-8"/><meta http-equiv="x-ua-compatible" content="IE=edge"/><title>Symmetry | @rcsb/rcsb-saguaro-3d</title><meta name="description" content="Documentation for @rcsb/rcsb-saguaro-3d"/><meta name="viewport" content="width=device-width, initial-scale=1"/><link rel="stylesheet" href="../assets/style.css"/><link rel="stylesheet" href="../assets/highlight.css"/><script async src="../assets/search.js" id="search-script"></script></head><body><script>document.body.classList.add(localStorage.getItem("tsd-theme") || "os")</script><header><div class="tsd-page-toolbar"><div class="container"><div class="table-wrap"><div class="table-cell" id="tsd-search" data-base=".."><div class="field"><label for="tsd-search-field" class="tsd-widget search no-caption">Search</label><input type="text" id="tsd-search-field"/></div><ul class="results"><li class="state loading">Preparing search index...</li><li class="state failure">The search index is not available</li></ul><a href="../index.html" class="title">@rcsb/rcsb-saguaro-3d</a></div><div class="table-cell" id="tsd-widgets"><div id="tsd-filter"><a href="#" class="tsd-widget options no-caption" data-toggle="options">Options</a><div class="tsd-filter-group"><div class="tsd-select" id="tsd-filter-visibility"><span class="tsd-select-label">All</span><ul class="tsd-select-list"><li data-value="public">Public</li><li data-value="protected">Public/Protected</li><li data-value="private" class="selected">All</li></ul></div> <input type="checkbox" id="tsd-filter-inherited" checked/><label class="tsd-widget" for="tsd-filter-inherited">Inherited</label><input type="checkbox" id="tsd-filter-externals" checked/><label class="tsd-widget" for="tsd-filter-externals">Externals</label></div></div><a href="#" class="tsd-widget menu no-caption" data-toggle="menu">Menu</a></div></div></div></div><div class="tsd-page-title"><div class="container"><ul class="tsd-breadcrumb"><li><a href="../modules.html">@rcsb/rcsb-saguaro-3d</a></li><li><a href="../modules/RcsbFv3DAssembly.html">RcsbFv3DAssembly</a></li><li><a href="../modules/RcsbFv3DAssembly._internal_.html">&lt;internal&gt;</a></li><li><a href="RcsbFv3DAssembly._internal_.Symmetry.html">Symmetry</a></li></ul><h1>Interface Symmetry </h1></div></div></header><div class="container container-main"><div class="row"><div class="col-8 col-content"><section class="tsd-panel tsd-hierarchy"><h3>Hierarchy</h3><ul class="tsd-hierarchy"><li><span class="target">Symmetry</span></li></ul></section><section class="tsd-panel-group tsd-index-group"><h2>Index</h2><section class="tsd-panel tsd-index-panel"><div class="tsd-index-content"><section class="tsd-index-section tsd-is-external"><h3>Properties</h3><ul class="tsd-index-list"><li class="tsd-kind-property tsd-parent-kind-interface tsd-is-external"><a href="RcsbFv3DAssembly._internal_.Symmetry.html#Int_Tables_number" class="tsd-kind-icon">Int_<wbr/>Tables_<wbr/>number</a></li><li class="tsd-kind-property tsd-parent-kind-interface tsd-is-external"><a href="RcsbFv3DAssembly._internal_.Symmetry.html#__typename" class="tsd-kind-icon">__typename</a></li><li class="tsd-kind-property tsd-parent-kind-interface tsd-is-external"><a href="RcsbFv3DAssembly._internal_.Symmetry.html#cell_setting" class="tsd-kind-icon">cell_<wbr/>setting</a></li><li class="tsd-kind-property tsd-parent-kind-interface tsd-is-external"><a href="RcsbFv3DAssembly._internal_.Symmetry.html#pdbx_full_space_group_name_H_M" class="tsd-kind-icon">pdbx_<wbr/>full_<wbr/>space_<wbr/>group_<wbr/>name_<wbr/>H_<wbr/>M</a></li><li class="tsd-kind-property tsd-parent-kind-interface tsd-is-external"><a href="RcsbFv3DAssembly._internal_.Symmetry.html#space_group_name_H_M" class="tsd-kind-icon">space_<wbr/>group_<wbr/>name_<wbr/>H_<wbr/>M</a></li><li class="tsd-kind-property tsd-parent-kind-interface tsd-is-external"><a href="RcsbFv3DAssembly._internal_.Symmetry.html#space_group_name_Hall" class="tsd-kind-icon">space_<wbr/>group_<wbr/>name_<wbr/>Hall</a></li></ul></section></div></section></section><section class="tsd-panel-group tsd-member-group tsd-is-external"><h2>Properties</h2><section class="tsd-panel tsd-member tsd-kind-property tsd-parent-kind-interface tsd-is-external"><a id="Int_Tables_number" class="tsd-anchor"></a><h3 class="tsd-anchor-link"><span class="tsd-flag ts-flagOptional">Optional</span> Int_<wbr/>Tables_<wbr/>number<a href="#Int_Tables_number" aria-label="Permalink" class="tsd-anchor-icon"><svg xmlns="http://www.w3.org/2000/svg" class="icon icon-tabler icon-tabler-link" viewBox="0 0 24 24" stroke-width="2" stroke="currentColor" fill="none" stroke-linecap="round" stroke-linejoin="round"><path stroke="none" d="M0 0h24v24H0z" fill="none"></path><path d="M10 14a3.5 3.5 0 0 0 5 0l4 -4a3.5 3.5 0 0 0 -5 -5l-.5 .5"></path><path d="M14 10a3.5 3.5 0 0 0 -5 0l-4 4a3.5 3.5 0 0 0 5 5l.5 -.5"></path></svg></a></h3><div class="tsd-signature tsd-kind-icon">Int_<wbr/>Tables_<wbr/>number<span class="tsd-signature-symbol">?:</span> <a href="../modules/RcsbFv3DAssembly._internal_.html" class="tsd-signature-type" data-tsd-kind="Namespace">&lt;internal&gt;</a><span class="tsd-signature-symbol">.</span><a href="../modules/RcsbFv3DAssembly._internal_.html#Maybe-1" class="tsd-signature-type" data-tsd-kind="Type alias">Maybe</a><span class="tsd-signature-symbol">&lt;</span><span class="tsd-signature-type">number</span><span class="tsd-signature-symbol">&gt;</span></div><aside class="tsd-sources"><ul><li>Defined in node_modules/@rcsb/rcsb-api-tools/build/RcsbGraphQL/Types/Yosemite/GqlTypes.d.ts:13517</li></ul></aside><div class="tsd-comment tsd-typography"><div class="lead">
    2. 

  2. <p>Space-group number from International Tables for Crystallography
    3. 

  3.  Vol. A (2002).</p>
    4. 

  4. </div></div></section><section class="tsd-panel tsd-member tsd-kind-property tsd-parent-kind-interface tsd-is-external"><a id="__typename" class="tsd-anchor"></a><h3 class="tsd-anchor-link"><span class="tsd-flag ts-flagOptional">Optional</span> __typename<a href="#__typename" aria-label="Permalink" class="tsd-anchor-icon"><svg xmlns="http://www.w3.org/2000/svg" class="icon icon-tabler icon-tabler-link" viewBox="0 0 24 24" stroke-width="2" stroke="currentColor" fill="none" stroke-linecap="round" stroke-linejoin="round"><path stroke="none" d="M0 0h24v24H0z" fill="none"></path><path d="M10 14a3.5 3.5 0 0 0 5 0l4 -4a3.5 3.5 0 0 0 -5 -5l-.5 .5"></path><path d="M14 10a3.5 3.5 0 0 0 -5 0l-4 4a3.5 3.5 0 0 0 5 5l.5 -.5"></path></svg></a></h3><div class="tsd-signature tsd-kind-icon">__typename<span class="tsd-signature-symbol">?:</span> <span class="tsd-signature-type">&quot;Symmetry&quot;</span></div><aside class="tsd-sources"><ul><li>Defined in node_modules/@rcsb/rcsb-api-tools/build/RcsbGraphQL/Types/Yosemite/GqlTypes.d.ts:13512</li></ul></aside></section><section class="tsd-panel tsd-member tsd-kind-property tsd-parent-kind-interface tsd-is-external"><a id="cell_setting" class="tsd-anchor"></a><h3 class="tsd-anchor-link"><span class="tsd-flag ts-flagOptional">Optional</span> cell_<wbr/>setting<a href="#cell_setting" aria-label="Permalink" class="tsd-anchor-icon"><svg xmlns="http://www.w3.org/2000/svg" class="icon icon-tabler icon-tabler-link" viewBox="0 0 24 24" stroke-width="2" stroke="currentColor" fill="none" stroke-linecap="round" stroke-linejoin="round"><path stroke="none" d="M0 0h24v24H0z" fill="none"></path><path d="M10 14a3.5 3.5 0 0 0 5 0l4 -4a3.5 3.5 0 0 0 -5 -5l-.5 .5"></path><path d="M14 10a3.5 3.5 0 0 0 -5 0l-4 4a3.5 3.5 0 0 0 5 5l.5 -.5"></path></svg></a></h3><div class="tsd-signature tsd-kind-icon">cell_<wbr/>setting<span class="tsd-signature-symbol">?:</span> <a href="../modules/RcsbFv3DAssembly._internal_.html" class="tsd-signature-type" data-tsd-kind="Namespace">&lt;internal&gt;</a><span class="tsd-signature-symbol">.</span><a href="../modules/RcsbFv3DAssembly._internal_.html#Maybe-1" class="tsd-signature-type" data-tsd-kind="Type alias">Maybe</a><span class="tsd-signature-symbol">&lt;</span><span class="tsd-signature-type">string</span><span class="tsd-signature-symbol">&gt;</span></div><aside class="tsd-sources"><ul><li>Defined in node_modules/@rcsb/rcsb-api-tools/build/RcsbGraphQL/Types/Yosemite/GqlTypes.d.ts:13525</li></ul></aside><div class="tsd-comment tsd-typography"><div class="lead">
    5. 

  5. <p>The cell settings for this space-group symmetry.</p>
    6. 

  6. </div><div><p>Allowable values:
    7. 

  7. cubic, hexagonal, monoclinic, orthorhombic, rhombohedral, tetragonal, triclinic, trigonal</p>
    8. 

  8. </div></div></section><section class="tsd-panel tsd-member tsd-kind-property tsd-parent-kind-interface tsd-is-external"><a id="pdbx_full_space_group_name_H_M" class="tsd-anchor"></a><h3 class="tsd-anchor-link"><span class="tsd-flag ts-flagOptional">Optional</span> pdbx_<wbr/>full_<wbr/>space_<wbr/>group_<wbr/>name_<wbr/>H_<wbr/>M<a href="#pdbx_full_space_group_name_H_M" aria-label="Permalink" class="tsd-anchor-icon"><svg xmlns="http://www.w3.org/2000/svg" class="icon icon-tabler icon-tabler-link" viewBox="0 0 24 24" stroke-width="2" stroke="currentColor" fill="none" stroke-linecap="round" stroke-linejoin="round"><path stroke="none" d="M0 0h24v24H0z" fill="none"></path><path d="M10 14a3.5 3.5 0 0 0 5 0l4 -4a3.5 3.5 0 0 0 -5 -5l-.5 .5"></path><path d="M14 10a3.5 3.5 0 0 0 -5 0l-4 4a3.5 3.5 0 0 0 5 5l.5 -.5"></path></svg></a></h3><div class="tsd-signature tsd-kind-icon">pdbx_<wbr/>full_<wbr/>space_<wbr/>group_<wbr/>name_<wbr/>H_<wbr/>M<span class="tsd-signature-symbol">?:</span> <a href="../modules/RcsbFv3DAssembly._internal_.html" class="tsd-signature-type" data-tsd-kind="Namespace">&lt;internal&gt;</a><span class="tsd-signature-symbol">.</span><a href="../modules/RcsbFv3DAssembly._internal_.html#Maybe-1" class="tsd-signature-type" data-tsd-kind="Type alias">Maybe</a><span class="tsd-signature-symbol">&lt;</span><span class="tsd-signature-type">string</span><span class="tsd-signature-symbol">&gt;</span></div><aside class="tsd-sources"><ul><li>Defined in node_modules/@rcsb/rcsb-api-tools/build/RcsbGraphQL/Types/Yosemite/GqlTypes.d.ts:13545</li></ul></aside><div class="tsd-comment tsd-typography"><div class="lead">
    9. 

  9. <p>Used for PDB space group:</p>
    10. 

  10. </div><div><p> Example: &#39;C 1 2 1&#39;  (instead of C 2)
    11. 

  11.           &#39;P 1 2 1&#39;  (instead of P 2)
    12. 

  12.           &#39;P 1 21 1&#39; (instead of P 21)
    13. 

  13.           &#39;P 1 1 21&#39; (instead of P 21 -unique C axis)
    14. 

  14.           &#39;H 3&#39;      (instead of R 3   -hexagonal)
    15. 

  15.           &#39;H 3 2&#39;    (instead of R 3 2 -hexagonal)</p>
    16. 

  16. <p>Examples:
    17. 

  17. Example: &#39;C 1 2 1&#39;  (instead of C 2)
    18. 

  18.            &#39;P 1 2 1&#39;  (instead of P 2)
    19. 

  19.            &#39;P 1 21 1&#39; (instead of P 21)
    20. 

  20.            &#39;P 1 1 21&#39; (instead of P 21 -unique C axis)
    21. 

  21.            &#39;H 3&#39;      (instead of R 3   -hexagonal)
    22. 

  22.            &#39;H 3 2&#39;    (instead of R 3 2 -hexagonal)</p>
    23. 

  23. </div></div></section><section class="tsd-panel tsd-member tsd-kind-property tsd-parent-kind-interface tsd-is-external"><a id="space_group_name_H_M" class="tsd-anchor"></a><h3 class="tsd-anchor-link"><span class="tsd-flag ts-flagOptional">Optional</span> space_<wbr/>group_<wbr/>name_<wbr/>H_<wbr/>M<a href="#space_group_name_H_M" aria-label="Permalink" class="tsd-anchor-icon"><svg xmlns="http://www.w3.org/2000/svg" class="icon icon-tabler icon-tabler-link" viewBox="0 0 24 24" stroke-width="2" stroke="currentColor" fill="none" stroke-linecap="round" stroke-linejoin="round"><path stroke="none" d="M0 0h24v24H0z" fill="none"></path><path d="M10 14a3.5 3.5 0 0 0 5 0l4 -4a3.5 3.5 0 0 0 -5 -5l-.5 .5"></path><path d="M14 10a3.5 3.5 0 0 0 -5 0l-4 4a3.5 3.5 0 0 0 5 5l.5 -.5"></path></svg></a></h3><div class="tsd-signature tsd-kind-icon">space_<wbr/>group_<wbr/>name_<wbr/>H_<wbr/>M<span class="tsd-signature-symbol">?:</span> <a href="../modules/RcsbFv3DAssembly._internal_.html" class="tsd-signature-type" data-tsd-kind="Namespace">&lt;internal&gt;</a><span class="tsd-signature-symbol">.</span><a href="../modules/RcsbFv3DAssembly._internal_.html#Maybe-1" class="tsd-signature-type" data-tsd-kind="Type alias">Maybe</a><span class="tsd-signature-symbol">&lt;</span><span class="tsd-signature-type">string</span><span class="tsd-signature-symbol">&gt;</span></div><aside class="tsd-sources"><ul><li>Defined in node_modules/@rcsb/rcsb-api-tools/build/RcsbGraphQL/Types/Yosemite/GqlTypes.d.ts:13563</li></ul></aside><div class="tsd-comment tsd-typography"><div class="lead">
    24. 

  24. <p>Hermann-Mauguin space-group symbol. Note that the
    25. 

  25.  Hermann-Mauguin symbol does not necessarily contain complete
    26. 

  26.  information about the symmetry and the space-group origin. If
    27. 

  27.  used, always supply the FULL symbol from International Tables
    28. 

  28.  for Crystallography Vol. A (2002) and indicate the origin and
    29. 

  29.  the setting if it is not implicit. If there is any doubt that
    30. 

  30.  the equivalent positions can be uniquely deduced from this
    31. 

  31.  symbol, specify the  _symmetry_equiv.pos_as_xyz or
    32. 

  32.  _symmetry.space_group_name_Hall  data items as well. Leave
    33. 

  33.  spaces between symbols referring to
    34. 

  34.  different axes.</p>
    35. 

  35. </div><div><p>Examples:
    36. 

  36. A 1, A 1 2 1, A 2, B 1 1 2, B 2, B 2 21 2, C 2, C 1 2 1, C 21, C 1 21 1, C 2(A 112), C 2 2 2, C 2 2 21, C 4 21 2, F 2 2 2, F 2 3, F 4 2 2, F 4 3 2, F 41 3 2, I 1 2 1, I 1 21 1, I 2, I 2 2 2, I 2 3, I 21, I 21 3, I 21 21 21, I 4, I 4 2 2, I 4 3 2, I 41, I 41/a, I 41 2 2, I 41 3 2, P 1, P 1-, P 2, P 1 2 1, P 1 1 2, P 2 2 2, P 2 3, P 2 2 21, P 2 21 21, P 21, P 1 21 1, P 1 21/c 1, P 1 1 21, P 21(C), P 21 2 21, P 21 3, P 21 21 2, P 21 21 2 A, P 21 21 21, P 3, P 3 1 2, P 3 2 1, P 31, P 31 1 2, P 31 2 1, P 32, P 32 1 2, P 32 2 1, P 4, P 4 2 2, P 4 3 2, P 4 21 2, P 41, P 41 2 2, P 41 3 2, P 41 21 2, P 42, P 42 2 2, P 42 3 2, P 42 21 2, P 43, P 43 2 2, P 43 3 2, P 43 21 2, P 6, P 6 2 2, P 61, P 61 2 2, P 62, P 62 2 2, P 63, P 63 2 2, P 64, P 64 2 2, P 65, P 65 2 2, H 3, R 3, H 3 2, R 3 2</p>
    37. 

  37. </div></div></section><section class="tsd-panel tsd-member tsd-kind-property tsd-parent-kind-interface tsd-is-external"><a id="space_group_name_Hall" class="tsd-anchor"></a><h3 class="tsd-anchor-link"><span class="tsd-flag ts-flagOptional">Optional</span> space_<wbr/>group_<wbr/>name_<wbr/>Hall<a href="#space_group_name_Hall" aria-label="Permalink" class="tsd-anchor-icon"><svg xmlns="http://www.w3.org/2000/svg" class="icon icon-tabler icon-tabler-link" viewBox="0 0 24 24" stroke-width="2" stroke="currentColor" fill="none" stroke-linecap="round" stroke-linejoin="round"><path stroke="none" d="M0 0h24v24H0z" fill="none"></path><path d="M10 14a3.5 3.5 0 0 0 5 0l4 -4a3.5 3.5 0 0 0 -5 -5l-.5 .5"></path><path d="M14 10a3.5 3.5 0 0 0 -5 0l-4 4a3.5 3.5 0 0 0 5 5l.5 -.5"></path></svg></a></h3><div class="tsd-signature tsd-kind-icon">space_<wbr/>group_<wbr/>name_<wbr/>Hall<span class="tsd-signature-symbol">?:</span> <a href="../modules/RcsbFv3DAssembly._internal_.html" class="tsd-signature-type" data-tsd-kind="Namespace">&lt;internal&gt;</a><span class="tsd-signature-symbol">.</span><a href="../modules/RcsbFv3DAssembly._internal_.html#Maybe-1" class="tsd-signature-type" data-tsd-kind="Type alias">Maybe</a><span class="tsd-signature-symbol">&lt;</span><span class="tsd-signature-type">string</span><span class="tsd-signature-symbol">&gt;</span></div><aside class="tsd-sources"><ul><li>Defined in node_modules/@rcsb/rcsb-api-tools/build/RcsbGraphQL/Types/Yosemite/GqlTypes.d.ts:13576</li></ul></aside><div class="tsd-comment tsd-typography"><div class="lead">
    38. 

  38. <p>Space-group symbol as described by Hall (1981). This symbol
    39. 

  39.  gives the space-group setting explicitly. Leave spaces between
    40. 

  40.  the separate components of the symbol.</p>
    41. 

  41. </div><div><p> Ref: Hall, S. R. (1981). Acta Cryst. A37, 517-525; erratum
    42. 

  42.  (1981) A37, 921.</p>
    43. 

  43. <p>Examples:
    44. 

  44. -P 2ac 2n, -R 3 2&quot;, P 61 2 2 (0 0 -1)</p>
    45. 

  45. </div></div></section></section></div><div class="col-4 col-menu menu-sticky-wrap menu-highlight"><nav class="tsd-navigation primary"><ul><li class=""><a href="../modules.html">Modules</a></li><li class="current tsd-kind-module"><a href="../modules/RcsbFv3DAssembly.html">Rcsb<wbr/>Fv3DAssembly</a><ul><li class="current tsd-kind-namespace tsd-parent-kind-module"><a href="../modules/RcsbFv3DAssembly._internal_.html">&lt;internal&gt;</a><ul><li class=" tsd-kind-namespace tsd-parent-kind-namespace tsd-is-external"><a href="../modules/RcsbFv3DAssembly._internal_.__Users_joan_devel_rcsb_saguaro_3d_node_modules_molstar_lib_mol_geo_geometry_text_font_atlas_.html">&quot;/<wbr/>Users/joan/devel/rcsb-<wbr/>saguaro-<wbr/>3d/node_<wbr/>modules/molstar/lib/mol-<wbr/>geo/geometry/text/font-<wbr/>atlas&quot;</a></li><li class=" tsd-kind-namespace tsd-parent-kind-namespace tsd-is-external"><a 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