User:Tilman Schirmer/Sandbox 100
From Proteopedia
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<scene name='User:Tilman_Schirmer/Sandbox_100/Beta_sheets/2'>Beta strands</scene> | <scene name='User:Tilman_Schirmer/Sandbox_100/Beta_sheets/2'>Beta strands</scene> | ||
<scene name='User:Tilman_Schirmer/Sandbox_100/Beta_sheets_backbone/2'>Beta strands C-alpha trace</scene> | <scene name='User:Tilman_Schirmer/Sandbox_100/Beta_sheets_backbone/2'>Beta strands C-alpha trace</scene> | ||
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<scene name='User:Tilman_Schirmer/Sandbox_100/Turn_backbone/4'>Turn backbone</scene> | <scene name='User:Tilman_Schirmer/Sandbox_100/Turn_backbone/4'>Turn backbone</scene> | ||
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Revision as of 14:37, 23 March 2009
Contents |
Secondary structure of proteins
Repetitive torsion angles
|
A polypeptide chain with a repetition of identical phi-psi torsion angles yields a helical structure.
phi-psi = (180o, 180o), fully extended chain:
,
phi-psi = (-140o, 130o), extended chain:
,
; this is the β-strand conformation found in beta-sheets
Note:
polypeptide forms a with side-chains protruding towards alternating (up, down) directions
the polypeptide main-chain is as can been seen when looking along the chain
the point towards alternate directions
phi-psi = (70o, 180o):
,
; note that there are clashes (where?)
phi-psi = (-60o, -40o), α-helix:
,
phi-psi = (-50o, -26o), 310 helix: ,
α-Helix
|
An α-Helix is stabilized by main-chain between Oi and Ni+4. With .
parallel β-sheet
|
With .
antiparallel β-sheet
|
With .
Anatomy of a protein
|
<!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.01 Transitional//EN">
<html lang="en">
<head>
<link rel="alternate" type="application/rss+xml" title="RCSB PDB - Latest Released Structures" href="/pdb/rss/LastLoad">
<meta http-equiv="Content-Type" content="text/html; charset=iso-8859-1">
<title>RCSB PDB : Sequence Details Report</title>
<link rel="shortcut icon" href="/pdb/img/pdb.ico" type="image/x-icon">
<link rel="stylesheet" href="/pdb/skins/pastel/styles/pdbcomp.css" type="text/css">
<script type="text/javascript" language="JavaScript" src="/pdb/common/lib/comp.js"></script>
<script type="text/javascript" language="JavaScript" src="/pdb/common/lib/expandable.js"></script>
<script type="text/javascript" language="JavaScript" src="/pdb/common/lib/results.js"></script>
<script src="/pdb/Viewers/jmol-11.6/Jmol.js" type="text/javascript"></script>
<script type="text/javascript" language="JavaScript" src="/pdb/common/lib/jquery-1.2.3.pack.js"></script>
Notes
see also http://proteopedia.org/wiki/index.php/User:James_D_Watson/Structural_Templates
