Difference between revisions of "PDB"

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전산상의 문서를 통합하고, 일반성, 호환성및 유연성을 이루고 있다.<br />
 
전산상의 문서를 통합하고, 일반성, 호환성및 유연성을 이루고 있다.<br />
 
<br />
 
<br />
<a href="http://www.rcsb.org/">http://www.rcsb.org/</a>&nbsp;</p>
+
<a href="http://www.rcsb.org/">http://www.rcsb.org/</a>&nbsp;<br />
 +
<br />
 +
<br />
 +
</p>
 +
<div align="center">
 +
<table style="BACKGROUND: white; WIDTH: 729px; HEIGHT: 151px" cellpadding="0" border="0">
 +
    <tbody>
 +
        <tr>
 +
            <td style="BORDER-RIGHT: #ece9d8; PADDING-RIGHT: 0.75pt; BORDER-TOP: #ece9d8; PADDING-LEFT: 0.75pt; BACKGROUND: #cccccc; PADDING-BOTTOM: 0.75pt; BORDER-LEFT: #ece9d8; PADDING-TOP: 0.75pt; BORDER-BOTTOM: #ece9d8">
 +
            <div style="WORD-BREAK: keep-all; TEXT-AUTOSPACE: ideograph-numeric" align="center"><strong><span style="FONT-SIZE: 12pt">&nbsp;</span></strong></div>
 +
            </td>
 +
            <td style="BORDER-RIGHT: #ece9d8; PADDING-RIGHT: 0.75pt; BORDER-TOP: #ece9d8; PADDING-LEFT: 0.75pt; BACKGROUND: #cccccc; PADDING-BOTTOM: 0.75pt; BORDER-LEFT: #ece9d8; PADDING-TOP: 0.75pt; BORDER-BOTTOM: #ece9d8">
 +
            <div style="WORD-BREAK: keep-all; TEXT-AUTOSPACE: ideograph-numeric" align="center"><strong><span style="FONT-SIZE: 12pt">Proteins</span></strong></div>
 +
            </td>
 +
            <td style="BORDER-RIGHT: #ece9d8; PADDING-RIGHT: 0.75pt; BORDER-TOP: #ece9d8; PADDING-LEFT: 0.75pt; BACKGROUND: #cccccc; PADDING-BOTTOM: 0.75pt; BORDER-LEFT: #ece9d8; PADDING-TOP: 0.75pt; BORDER-BOTTOM: #ece9d8">
 +
            <div style="WORD-BREAK: keep-all; TEXT-AUTOSPACE: ideograph-numeric" align="center"><strong><span style="FONT-SIZE: 12pt">Nucleic Acids</span></strong></div>
 +
            </td>
 +
            <td style="BORDER-RIGHT: #ece9d8; PADDING-RIGHT: 0.75pt; BORDER-TOP: #ece9d8; PADDING-LEFT: 0.75pt; BACKGROUND: #cccccc; PADDING-BOTTOM: 0.75pt; BORDER-LEFT: #ece9d8; PADDING-TOP: 0.75pt; BORDER-BOTTOM: #ece9d8">
 +
            <div style="WORD-BREAK: keep-all; TEXT-AUTOSPACE: ideograph-numeric" align="center"><strong><span style="FONT-SIZE: 12pt">Protein/NA complexes</span></strong></div>
 +
            </td>
 +
            <td style="BORDER-RIGHT: #ece9d8; PADDING-RIGHT: 0.75pt; BORDER-TOP: #ece9d8; PADDING-LEFT: 0.75pt; BACKGROUND: #cccccc; PADDING-BOTTOM: 0.75pt; BORDER-LEFT: #ece9d8; PADDING-TOP: 0.75pt; BORDER-BOTTOM: #ece9d8">
 +
            <div style="WORD-BREAK: keep-all; TEXT-AUTOSPACE: ideograph-numeric" align="center"><strong><span style="FONT-SIZE: 12pt">Other</span></strong></div>
 +
            </td>
 +
            <td style="BORDER-RIGHT: #ece9d8; PADDING-RIGHT: 0.75pt; BORDER-TOP: #ece9d8; PADDING-LEFT: 0.75pt; BACKGROUND: #cccccc; PADDING-BOTTOM: 0.75pt; BORDER-LEFT: #ece9d8; PADDING-TOP: 0.75pt; BORDER-BOTTOM: #ece9d8">
 +
            <div style="WORD-BREAK: keep-all; TEXT-AUTOSPACE: ideograph-numeric" align="center"><strong><span style="FONT-SIZE: 12pt">Total</span></strong></div>
 +
            </td>
 +
        </tr>
 +
        <tr>
 +
            <td style="BORDER-RIGHT: #ece9d8; PADDING-RIGHT: 0.75pt; BORDER-TOP: #ece9d8; PADDING-LEFT: 0.75pt; PADDING-BOTTOM: 0.75pt; BORDER-LEFT: #ece9d8; PADDING-TOP: 0.75pt; BORDER-BOTTOM: #ece9d8; BACKGROUND-COLOR: transparent">
 +
            <div style="WORD-BREAK: keep-all; TEXT-AUTOSPACE: ideograph-numeric" align="left"><span style="FONT-SIZE: 12pt">X-ray diffraction</span></div>
 +
            </td>
 +
            <td style="BORDER-RIGHT: #ece9d8; PADDING-RIGHT: 0.75pt; BORDER-TOP: #ece9d8; PADDING-LEFT: 0.75pt; PADDING-BOTTOM: 0.75pt; BORDER-LEFT: #ece9d8; PADDING-TOP: 0.75pt; BORDER-BOTTOM: #ece9d8; BACKGROUND-COLOR: transparent">
 +
            <div style="WORD-BREAK: keep-all; TEXT-AUTOSPACE: ideograph-numeric" align="right"><span style="FONT-SIZE: 12pt">41792</span></div>
 +
            </td>
 +
            <td style="BORDER-RIGHT: #ece9d8; PADDING-RIGHT: 0.75pt; BORDER-TOP: #ece9d8; PADDING-LEFT: 0.75pt; PADDING-BOTTOM: 0.75pt; BORDER-LEFT: #ece9d8; PADDING-TOP: 0.75pt; BORDER-BOTTOM: #ece9d8; BACKGROUND-COLOR: transparent">
 +
            <div style="WORD-BREAK: keep-all; TEXT-AUTOSPACE: ideograph-numeric" align="right"><span style="FONT-SIZE: 12pt">1067</span></div>
 +
            </td>
 +
            <td style="BORDER-RIGHT: #ece9d8; PADDING-RIGHT: 0.75pt; BORDER-TOP: #ece9d8; PADDING-LEFT: 0.75pt; PADDING-BOTTOM: 0.75pt; BORDER-LEFT: #ece9d8; PADDING-TOP: 0.75pt; BORDER-BOTTOM: #ece9d8; BACKGROUND-COLOR: transparent">
 +
            <div style="WORD-BREAK: keep-all; TEXT-AUTOSPACE: ideograph-numeric" align="right"><span style="FONT-SIZE: 12pt">1920</span></div>
 +
            </td>
 +
            <td style="BORDER-RIGHT: #ece9d8; PADDING-RIGHT: 0.75pt; BORDER-TOP: #ece9d8; PADDING-LEFT: 0.75pt; PADDING-BOTTOM: 0.75pt; BORDER-LEFT: #ece9d8; PADDING-TOP: 0.75pt; BORDER-BOTTOM: #ece9d8; BACKGROUND-COLOR: transparent">
 +
            <div style="WORD-BREAK: keep-all; TEXT-AUTOSPACE: ideograph-numeric" align="right"><span style="FONT-SIZE: 12pt">24</span></div>
 +
            </td>
 +
            <td style="BORDER-RIGHT: #ece9d8; PADDING-RIGHT: 0.75pt; BORDER-TOP: #ece9d8; PADDING-LEFT: 0.75pt; PADDING-BOTTOM: 0.75pt; BORDER-LEFT: #ece9d8; PADDING-TOP: 0.75pt; BORDER-BOTTOM: #ece9d8; BACKGROUND-COLOR: transparent">
 +
            <div style="WORD-BREAK: keep-all; TEXT-AUTOSPACE: ideograph-numeric" align="right"><span style="FONT-SIZE: 12pt">44803</span></div>
 +
            </td>
 +
        </tr>
 +
        <tr>
 +
            <td style="BORDER-RIGHT: #ece9d8; PADDING-RIGHT: 0.75pt; BORDER-TOP: #ece9d8; PADDING-LEFT: 0.75pt; BACKGROUND: #efefef; PADDING-BOTTOM: 0.75pt; BORDER-LEFT: #ece9d8; PADDING-TOP: 0.75pt; BORDER-BOTTOM: #ece9d8">
 +
            <div style="WORD-BREAK: keep-all; TEXT-AUTOSPACE: ideograph-numeric" align="left"><span style="FONT-SIZE: 12pt">NMR</span></div>
 +
            </td>
 +
            <td style="BORDER-RIGHT: #ece9d8; PADDING-RIGHT: 0.75pt; BORDER-TOP: #ece9d8; PADDING-LEFT: 0.75pt; BACKGROUND: #efefef; PADDING-BOTTOM: 0.75pt; BORDER-LEFT: #ece9d8; PADDING-TOP: 0.75pt; BORDER-BOTTOM: #ece9d8">
 +
            <div style="WORD-BREAK: keep-all; TEXT-AUTOSPACE: ideograph-numeric" align="right"><span style="FONT-SIZE: 12pt">6481</span></div>
 +
            </td>
 +
            <td style="BORDER-RIGHT: #ece9d8; PADDING-RIGHT: 0.75pt; BORDER-TOP: #ece9d8; PADDING-LEFT: 0.75pt; BACKGROUND: #efefef; PADDING-BOTTOM: 0.75pt; BORDER-LEFT: #ece9d8; PADDING-TOP: 0.75pt; BORDER-BOTTOM: #ece9d8">
 +
            <div style="WORD-BREAK: keep-all; TEXT-AUTOSPACE: ideograph-numeric" align="right"><span style="FONT-SIZE: 12pt">814</span></div>
 +
            </td>
 +
            <td style="BORDER-RIGHT: #ece9d8; PADDING-RIGHT: 0.75pt; BORDER-TOP: #ece9d8; PADDING-LEFT: 0.75pt; BACKGROUND: #efefef; PADDING-BOTTOM: 0.75pt; BORDER-LEFT: #ece9d8; PADDING-TOP: 0.75pt; BORDER-BOTTOM: #ece9d8">
 +
            <div style="WORD-BREAK: keep-all; TEXT-AUTOSPACE: ideograph-numeric" align="right"><span style="FONT-SIZE: 12pt">138</span></div>
 +
            </td>
 +
            <td style="BORDER-RIGHT: #ece9d8; PADDING-RIGHT: 0.75pt; BORDER-TOP: #ece9d8; PADDING-LEFT: 0.75pt; BACKGROUND: #efefef; PADDING-BOTTOM: 0.75pt; BORDER-LEFT: #ece9d8; PADDING-TOP: 0.75pt; BORDER-BOTTOM: #ece9d8">
 +
            <div style="WORD-BREAK: keep-all; TEXT-AUTOSPACE: ideograph-numeric" align="right"><span style="FONT-SIZE: 12pt">7</span></div>
 +
            </td>
 +
            <td style="BORDER-RIGHT: #ece9d8; PADDING-RIGHT: 0.75pt; BORDER-TOP: #ece9d8; PADDING-LEFT: 0.75pt; BACKGROUND: #efefef; PADDING-BOTTOM: 0.75pt; BORDER-LEFT: #ece9d8; PADDING-TOP: 0.75pt; BORDER-BOTTOM: #ece9d8">
 +
            <div style="WORD-BREAK: keep-all; TEXT-AUTOSPACE: ideograph-numeric" align="right"><span style="FONT-SIZE: 12pt">7440</span></div>
 +
            </td>
 +
        </tr>
 +
        <tr>
 +
            <td style="BORDER-RIGHT: #ece9d8; PADDING-RIGHT: 0.75pt; BORDER-TOP: #ece9d8; PADDING-LEFT: 0.75pt; PADDING-BOTTOM: 0.75pt; BORDER-LEFT: #ece9d8; PADDING-TOP: 0.75pt; BORDER-BOTTOM: #ece9d8; BACKGROUND-COLOR: transparent">
 +
            <div style="WORD-BREAK: keep-all; TEXT-AUTOSPACE: ideograph-numeric" align="left"><span style="FONT-SIZE: 12pt; COLOR: blue"><font color="#000000">Electron microscopy</font></span></div>
 +
            </td>
 +
            <td style="BORDER-RIGHT: #ece9d8; PADDING-RIGHT: 0.75pt; BORDER-TOP: #ece9d8; PADDING-LEFT: 0.75pt; PADDING-BOTTOM: 0.75pt; BORDER-LEFT: #ece9d8; PADDING-TOP: 0.75pt; BORDER-BOTTOM: #ece9d8; BACKGROUND-COLOR: transparent">
 +
            <div style="WORD-BREAK: keep-all; TEXT-AUTOSPACE: ideograph-numeric" align="right"><span style="FONT-SIZE: 12pt">132</span></div>
 +
            </td>
 +
            <td style="BORDER-RIGHT: #ece9d8; PADDING-RIGHT: 0.75pt; BORDER-TOP: #ece9d8; PADDING-LEFT: 0.75pt; PADDING-BOTTOM: 0.75pt; BORDER-LEFT: #ece9d8; PADDING-TOP: 0.75pt; BORDER-BOTTOM: #ece9d8; BACKGROUND-COLOR: transparent">
 +
            <div style="WORD-BREAK: keep-all; TEXT-AUTOSPACE: ideograph-numeric" align="right"><span style="FONT-SIZE: 12pt">11</span></div>
 +
            </td>
 +
            <td style="BORDER-RIGHT: #ece9d8; PADDING-RIGHT: 0.75pt; BORDER-TOP: #ece9d8; PADDING-LEFT: 0.75pt; PADDING-BOTTOM: 0.75pt; BORDER-LEFT: #ece9d8; PADDING-TOP: 0.75pt; BORDER-BOTTOM: #ece9d8; BACKGROUND-COLOR: transparent">
 +
            <div style="WORD-BREAK: keep-all; TEXT-AUTOSPACE: ideograph-numeric" align="right"><span style="FONT-SIZE: 12pt">49</span></div>
 +
            </td>
 +
            <td style="BORDER-RIGHT: #ece9d8; PADDING-RIGHT: 0.75pt; BORDER-TOP: #ece9d8; PADDING-LEFT: 0.75pt; PADDING-BOTTOM: 0.75pt; BORDER-LEFT: #ece9d8; PADDING-TOP: 0.75pt; BORDER-BOTTOM: #ece9d8; BACKGROUND-COLOR: transparent">
 +
            <div style="WORD-BREAK: keep-all; TEXT-AUTOSPACE: ideograph-numeric" align="right"><span style="FONT-SIZE: 12pt">0</span></div>
 +
            </td>
 +
            <td style="BORDER-RIGHT: #ece9d8; PADDING-RIGHT: 0.75pt; BORDER-TOP: #ece9d8; PADDING-LEFT: 0.75pt; PADDING-BOTTOM: 0.75pt; BORDER-LEFT: #ece9d8; PADDING-TOP: 0.75pt; BORDER-BOTTOM: #ece9d8; BACKGROUND-COLOR: transparent">
 +
            <div style="WORD-BREAK: keep-all; TEXT-AUTOSPACE: ideograph-numeric" align="right"><span style="FONT-SIZE: 12pt">192</span></div>
 +
            </td>
 +
        </tr>
 +
        <tr>
 +
            <td style="BORDER-RIGHT: #ece9d8; PADDING-RIGHT: 0.75pt; BORDER-TOP: #ece9d8; PADDING-LEFT: 0.75pt; BACKGROUND: #efefef; PADDING-BOTTOM: 0.75pt; BORDER-LEFT: #ece9d8; PADDING-TOP: 0.75pt; BORDER-BOTTOM: #ece9d8">
 +
            <div style="WORD-BREAK: keep-all; TEXT-AUTOSPACE: ideograph-numeric" align="left"><span style="FONT-SIZE: 12pt">Other</span></div>
 +
            </td>
 +
            <td style="BORDER-RIGHT: #ece9d8; PADDING-RIGHT: 0.75pt; BORDER-TOP: #ece9d8; PADDING-LEFT: 0.75pt; BACKGROUND: #efefef; PADDING-BOTTOM: 0.75pt; BORDER-LEFT: #ece9d8; PADDING-TOP: 0.75pt; BORDER-BOTTOM: #ece9d8">
 +
            <div style="WORD-BREAK: keep-all; TEXT-AUTOSPACE: ideograph-numeric" align="right"><span style="FONT-SIZE: 12pt">90</span></div>
 +
            </td>
 +
            <td style="BORDER-RIGHT: #ece9d8; PADDING-RIGHT: 0.75pt; BORDER-TOP: #ece9d8; PADDING-LEFT: 0.75pt; BACKGROUND: #efefef; PADDING-BOTTOM: 0.75pt; BORDER-LEFT: #ece9d8; PADDING-TOP: 0.75pt; BORDER-BOTTOM: #ece9d8">
 +
            <div style="WORD-BREAK: keep-all; TEXT-AUTOSPACE: ideograph-numeric" align="right"><span style="FONT-SIZE: 12pt">4</span></div>
 +
            </td>
 +
            <td style="BORDER-RIGHT: #ece9d8; PADDING-RIGHT: 0.75pt; BORDER-TOP: #ece9d8; PADDING-LEFT: 0.75pt; BACKGROUND: #efefef; PADDING-BOTTOM: 0.75pt; BORDER-LEFT: #ece9d8; PADDING-TOP: 0.75pt; BORDER-BOTTOM: #ece9d8">
 +
            <div style="WORD-BREAK: keep-all; TEXT-AUTOSPACE: ideograph-numeric" align="right"><span style="FONT-SIZE: 12pt">4</span></div>
 +
            </td>
 +
            <td style="BORDER-RIGHT: #ece9d8; PADDING-RIGHT: 0.75pt; BORDER-TOP: #ece9d8; PADDING-LEFT: 0.75pt; BACKGROUND: #efefef; PADDING-BOTTOM: 0.75pt; BORDER-LEFT: #ece9d8; PADDING-TOP: 0.75pt; BORDER-BOTTOM: #ece9d8">
 +
            <div style="WORD-BREAK: keep-all; TEXT-AUTOSPACE: ideograph-numeric" align="right"><span style="FONT-SIZE: 12pt">2</span></div>
 +
            </td>
 +
            <td style="BORDER-RIGHT: #ece9d8; PADDING-RIGHT: 0.75pt; BORDER-TOP: #ece9d8; PADDING-LEFT: 0.75pt; BACKGROUND: #efefef; PADDING-BOTTOM: 0.75pt; BORDER-LEFT: #ece9d8; PADDING-TOP: 0.75pt; BORDER-BOTTOM: #ece9d8">
 +
            <div style="WORD-BREAK: keep-all; TEXT-AUTOSPACE: ideograph-numeric" align="right"><span style="FONT-SIZE: 12pt">100</span></div>
 +
            </td>
 +
        </tr>
 +
        <tr>
 +
            <td style="BORDER-RIGHT: #ece9d8; PADDING-RIGHT: 0.75pt; BORDER-TOP: #ece9d8; PADDING-LEFT: 0.75pt; PADDING-BOTTOM: 0.75pt; BORDER-LEFT: #ece9d8; PADDING-TOP: 0.75pt; BORDER-BOTTOM: #ece9d8; BACKGROUND-COLOR: transparent">
 +
            <div style="WORD-BREAK: keep-all; TEXT-AUTOSPACE: ideograph-numeric" align="left"><span style="FONT-SIZE: 12pt">Total</span></div>
 +
            </td>
 +
            <td style="BORDER-RIGHT: #ece9d8; PADDING-RIGHT: 0.75pt; BORDER-TOP: #ece9d8; PADDING-LEFT: 0.75pt; PADDING-BOTTOM: 0.75pt; BORDER-LEFT: #ece9d8; PADDING-TOP: 0.75pt; BORDER-BOTTOM: #ece9d8; BACKGROUND-COLOR: transparent">
 +
            <div style="WORD-BREAK: keep-all; TEXT-AUTOSPACE: ideograph-numeric" align="right"><span style="FONT-SIZE: 12pt">48495</span></div>
 +
            </td>
 +
            <td style="BORDER-RIGHT: #ece9d8; PADDING-RIGHT: 0.75pt; BORDER-TOP: #ece9d8; PADDING-LEFT: 0.75pt; PADDING-BOTTOM: 0.75pt; BORDER-LEFT: #ece9d8; PADDING-TOP: 0.75pt; BORDER-BOTTOM: #ece9d8; BACKGROUND-COLOR: transparent">
 +
            <div style="WORD-BREAK: keep-all; TEXT-AUTOSPACE: ideograph-numeric" align="right"><span style="FONT-SIZE: 12pt">1896</span></div>
 +
            </td>
 +
            <td style="BORDER-RIGHT: #ece9d8; PADDING-RIGHT: 0.75pt; BORDER-TOP: #ece9d8; PADDING-LEFT: 0.75pt; PADDING-BOTTOM: 0.75pt; BORDER-LEFT: #ece9d8; PADDING-TOP: 0.75pt; BORDER-BOTTOM: #ece9d8; BACKGROUND-COLOR: transparent">
 +
            <div style="WORD-BREAK: keep-all; TEXT-AUTOSPACE: ideograph-numeric" align="right"><span style="FONT-SIZE: 12pt">2111</span></div>
 +
            </td>
 +
            <td style="BORDER-RIGHT: #ece9d8; PADDING-RIGHT: 0.75pt; BORDER-TOP: #ece9d8; PADDING-LEFT: 0.75pt; PADDING-BOTTOM: 0.75pt; BORDER-LEFT: #ece9d8; PADDING-TOP: 0.75pt; BORDER-BOTTOM: #ece9d8; BACKGROUND-COLOR: transparent">
 +
            <div style="WORD-BREAK: keep-all; TEXT-AUTOSPACE: ideograph-numeric" align="right"><span style="FONT-SIZE: 12pt">33</span></div>
 +
            </td>
 +
            <td style="BORDER-RIGHT: #ece9d8; PADDING-RIGHT: 0.75pt; BORDER-TOP: #ece9d8; PADDING-LEFT: 0.75pt; PADDING-BOTTOM: 0.75pt; BORDER-LEFT: #ece9d8; PADDING-TOP: 0.75pt; BORDER-BOTTOM: #ece9d8; BACKGROUND-COLOR: transparent">
 +
            <div style="WORD-BREAK: keep-all; TEXT-AUTOSPACE: ideograph-numeric" align="right"><strong><span style="FONT-SIZE: 12pt">52535</span></strong></div>
 +
            </td>
 +
        </tr>
 +
    </tbody>
 +
</table>
 +
<br />
 +
<br />
 +
</div>

Revision as of 15:20, 27 August 2008

PDB (Protein Data Bank)

PDB는 실험으로 밝혀진 단백질의 구조와 기능등 단백질 정보를 모아놓은 곳으로 미국의 Brookhaven National Laboratory에서 
운영하고 있다. 단백질 ID, 기능, 발견자, 구조등의 다양한 단백질의 정보를 저장하고 있다.

# PDB 사용목적
1. 관심 단백질의 구조 파악
2. 하나 또는 그 이상의 구조에 대한 분석 수행
3. 부가적인 정보제공
4. 3D 구조와 좌표를 통해 쉽게 알수 있도록 함

# PDB Database 포맷
- PDB format : 커뮤니티에서 널리 사용되는 형식으로, 구조 정보를 분석하는 프로그램의 defort 값으로 되어있다.
- mmCIF format : CIF format을 통해 충분한 데이터 이름을 주어서 단백질 구조를 논문에 사용하며, 
전산상의 문서를 통합하고, 일반성, 호환성및 유연성을 이루고 있다.

http://www.rcsb.org/ 


 
Proteins
Nucleic Acids
Protein/NA complexes
Other
Total
X-ray diffraction
41792
1067
1920
24
44803
NMR
6481
814
138
7
7440
Electron microscopy
132
11
49
0
192
Other
90
4
4
2
100
Total
48495
1896
2111
33
52535