Proteopedia:Main page develop

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<div style="font-size:175%; padding-top:0.5em; padding-left:30.0px;">Welcome to Proteopedia,</div>
<div style="font-size:175%; padding-top:0.5em; padding-left:30.0px;">Welcome to Proteopedia,</div>
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<div style="border:0px; padding:0px; margin=0px; line-height:2.0em; padding-left:30.0px;">The free, collaborative 3D encyclopedia</div>
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<div style="border:0px; padding:0px; margin=0px; line-height:2.0em; padding-left:30.0px;">The free, collaborative 3D encyclopedia of proteins & other molecules</div>
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<div style="border:0px; padding:0px; margin=0px; line-height:0em; padding-bottom:0.8em; padding-left:30.0px;">of proteins & other molecules</div>
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<applet load='1eve' size='300' frame='false' scene='Main_Page/E2020_in_ache_spinning/1'/>
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<applet load='2q66' size='300' frame='false' scene='Proteopedia:Main_page_develop/2q66_initial/3' />
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<div style="font-size:130%; line-height:2.0em"><span style="color:green" align="center">Green</span> links change the 3D image!</div>
<div style="font-size:130%; line-height:2.0em"><span style="color:green" align="center">Green</span> links change the 3D image!</div>
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<div style="font-size:200%; line-height:2.0em">[[1eve]]</div>
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<div style="font-size:200%; line-height:2.0em">[[2q66]] - Poly(A) polymerase</div>
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The anti-Alzheimer's drug E2020 (marketed as Aricept&reg;) is an inhibitor that binds acetylcholinesterase (AChE) with high affinity. The X-ray structure of the E2020-AChE (AChE from ''Torpedo california'') complex shows that E2020 has a '''<scene name='1eve/E2020_close_up_with_84_279/12'>unique orientation</scene>''' along the active-site gorge, extending from the anionic subsite ('''<scene name='1eve/E2020_close_up_with_84lbld/6'>W84</scene>''') of the active site, at the bottom, to the peripheral anionic site ('''<scene name='1eve/E2020_close_up_with_84_279lbld/4'>near W279</scene>'''), at the top, via aromatic stacking interactions with conserved aromatic acid residues. E2020 does not, however, interact directly with either the catalytic triad or the 'oxyanion hole' but only '''<scene name='1eve/E20_interactionshown/7'>indirectly via solvent molecules</scene>'''. [[1eve|Read more...]]
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Poly(A) polymerase binds specifically to ATP and adds it the end of a messenger RNA chain. This structure contains an oligo(A) polynucleotide with five nucleotides, an ATP molecule, and a magnesium ion. … In the <scene name='2q66/2q66_summary/1'>summary picture</scene>, the enzyme is in blue backbone representation, the RNA chain is in yellow, the ATP is in red, the magnesium is in green, and ALA154 is in magenta. Several mechanisms are used to achieve the specificity for ATP. The magnesium is coordinated by <scene name='2q66/2q66_asp/2'>ASP100 and ASP102</scene>, and the magnesium coordinates with the phosphates of ATP, positioning the nucleotide in the active site. The adenine base is sandwiched between the <scene name='2q66/2q66_stacking/2'>terminal base of the RNA (in yellow) and VAL234 (in cyan)</scene>. [[2q66|Read more...]]
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* [[Hemoglobin]] - the protein in your blood responsible for oxygen transport
* [[Hemoglobin]] - the protein in your blood responsible for oxygen transport
* [[HIV-1 protease]] - a protein made by the HIV virus that is crucial to its infectious capacity
* [[HIV-1 protease]] - a protein made by the HIV virus that is crucial to its infectious capacity
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* [[Lac repressor]] - a repressor that controls the expression of bacterial enzymes involved in lactose metabolism
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* [[Lac repressor]] - a protein that controls the expression of bacterial enzymes involved in lactose metabolism
<div align="right">[[Favorites|More]]...</div>
<div align="right">[[Favorites|More]]...</div>
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* All [[PDB]] entries (over 54,000) have pages
* All [[PDB]] entries (over 54,000) have pages
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<div align="right">[[Help:Searching|More]]...</div>
<div align="right">[[Help:Searching|More]]...</div>
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* [[2q66]] - yeast poly(a)-polymerase, adds poly-A tails to nascent messenger RNAs
* [[2q66]] - yeast poly(a)-polymerase, adds poly-A tails to nascent messenger RNAs
* [[Hydrogen bonds]]
* [[Hydrogen bonds]]
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<font color='green'>Green links</font> are easy to make! And pages are easy to create and edit!
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<div align="center">Pages are easy to create and edit, and <font color='green'>'''Green links'''</font> are easy to make! </div>
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[[Special:RequestAccount|Request an account]]. (Members of the scientific community, including students and educators.)
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[[Special:RequestAccount|Request an account]].<br/>''(Members of the scientific community, including students and educators.)''
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Get started with our narrated [[Proteopedia:Video_Guide|video guide]], then use our [[Help:Editing|editing-help page]] as a later reference.
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Get started with our narrated [[Proteopedia:Video_Guide|video guide]], then use our [[Help:Editing|editing-help page]] as a reference.
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Either help us expand an existing page like [[2ace]] or [[glycine]],
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Help us expand an existing page like [[1twc]] or [[Prion proteins]],
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or [[Help:EditingStartnewpage|start a new page]] on your favorite protein or topic.
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Or [[Help:Editing#How_To_Create_A_New_Page|start a new page]] on your favorite molecule or topic.
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We could use pages on [[DNA]], [[trypsin]], [[myoglobin]]
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We could use pages on [[DNA]], [[Trypsin]], and [[Myoglobin]], among [[Wanted pages|others]].
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* A resource for understanding and communicating protein 3D structure-function relationships
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* Understand and communicate protein 3D structure-function relationships
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** Example: [[1wsu]] - C-terminal domain of elongation factor selB complexed with SECIS RNA, featured in the Molecule of the Month at the PDB
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** Example: [[1wsu|Elongation factor SelB]], the protein responsible for adding the 21<sup>st</sup> amino acid selenocysteine to a growing protein chain in bacteria, featured in the [[Teaching_Scenes%2C_Tutorials%2C_and_Educators%27_Pages#Molecule_of_the_Month_.28MotM.29_Series|Molecule of the Month]] at the PDB.
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* Develop [[Teaching Scenes, Tutorials, and Educators' Pages|tutorials or molecular scenes]] to project during lectures
* Develop [[Teaching Scenes, Tutorials, and Educators' Pages|tutorials or molecular scenes]] to project during lectures
* [[Teaching Strategies Using Proteopedia|Assign students to construct pages]] in Proteopedia for [[Student Projects|class projects]] or reports
* [[Teaching Strategies Using Proteopedia|Assign students to construct pages]] in Proteopedia for [[Student Projects|class projects]] or reports
''(You may [[Help:Protected Pages|protect your teaching pages from editing]] by others.)''
''(You may [[Help:Protected Pages|protect your teaching pages from editing]] by others.)''
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* Create [[3btp|supplementary material]] for your journal publications
* Create [[3btp|supplementary material]] for your journal publications
* Create pages about your [[Research Groups|research team or institute]], highlighting structures you have researched.
* Create pages about your [[Research Groups|research team or institute]], highlighting structures you have researched.
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<div style="font-size:120%" align="left">Read the paper</div>
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''Proteopedia - a scientific 'wiki' bridging the rift between 3D structure and function of biomacromolecules'', '''Genome Biology''' 2008, 9:R121 [http://genomebiology.com/2008/9/8/R121 doi:10.1186/gb-2008-9-8-r121]
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{{Clear}}
{{Clear}}
__NOEDITSECTION____NOTOC___
__NOEDITSECTION____NOTOC___

Current revision

Welcome to Proteopedia,
The free, collaborative 3D encyclopedia of proteins & other molecules
About • Editing • Help Video Guide • Content (Topic Pages) • What's New
Currently featured article

PDB ID 2q66

Drag the structure with the mouse to rotate
Green links change the 3D image!
2q66 - Poly(A) polymerase

Poly(A) polymerase binds specifically to ATP and adds it the end of a messenger RNA chain. This structure contains an oligo(A) polynucleotide with five nucleotides, an ATP molecule, and a magnesium ion. … In the , the enzyme is in blue backbone representation, the RNA chain is in yellow, the ATP is in red, the magnesium is in green, and ALA154 is in magenta. Several mechanisms are used to achieve the specificity for ATP. The magnesium is coordinated by , and the magnesium coordinates with the phosphates of ATP, positioning the nucleotide in the active site. The adenine base is sandwiched between the . Read more...

Browse
Favorites
Find my protein/molecule
What's new?
  • Hemoglobin - the protein in your blood responsible for oxygen transport
  • HIV-1 protease - a protein made by the HIV virus that is crucial to its infectious capacity
  • Lac repressor - a protein that controls the expression of bacterial enzymes involved in lactose metabolism
More...
  • All PDB entries (over 54,000) have pages
  • Go takes you directly to the page if it exists,
  • Search gives you search results
More...
  • 2q66 - yeast poly(a)-polymerase, adds poly-A tails to nascent messenger RNAs
  • Hydrogen bonds
  • Morphs - visualizing conformational changes
Want to contribute?
Pages are easy to create and edit, and Green links are easy to make!
Step 1
Step 2
Step 3

Request an account.
(Members of the scientific community, including students and educators.)

Get started with our narrated video guide, then use our editing-help page as a reference.

Help us expand an existing page like 1twc or Prion proteins,

Or start a new page on your favorite molecule or topic.

We could use pages on DNA, Trypsin, and Myoglobin, among others.

What can Proteopedia do for me?
Scientists and Students
Educators
Structural researchers
  • Understand and communicate protein 3D structure-function relationships

(You may protect your teaching pages from editing by others.)

(You may protect such pages from editing by others, or unwanted viewing pre-publication.)

Read the paper

Proteopedia - a scientific 'wiki' bridging the rift between 3D structure and function of biomacromolecules, Genome Biology 2008, 9:R121 doi:10.1186/gb-2008-9-8-r121


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Proteopedia Page Contributors and Editors (what is this?)

Eran Hodis

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