Sandbox Reserved 553: Difference between revisions

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{{NCSU_BIOL414_Sandbox}}
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Hi everyone,
Hi Alex,
Here is your very own Proteopedia Page to play with.
Here is your very own Protopedia page for pdb code: 2WDK.
This page is not publicly available yet,
Your presentation date is scheduled for: June 11.
so don't worry about making mistakes that
other people will see.  


Have Fun!
Have Fun!


Greg Buhrman
Greg Buhrman
[[Image:2wdk.png|left|200px]]
<!--
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{{STRUCTURE_2wdk|  PDB=2wdk  |  SCENE=  }}
===STRUCTURE OF THE THERMUS THERMOPHILUS 70S RIBOSOME IN COMPLEX WITH MRNA, PAROMOMYCIN, ACYLATED A- AND P-SITE TRNAS, AND E-SITE TRNA. THIS FILE CONTAINS THE 30S SUBUNIT A-,P-, AND E-SITE TRNAS AND PAROMOMYCIN FOR MOLECULE I.===
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{{ABSTRACT_PUBMED_19363482}}
==About this Structure==
[[2wdk]] is a 25 chain structure of [[Ribosomal protein S10]], [[Ribosomal protein S11]], [[Ribosomal protein S12]], [[Ribosomal protein S13]], [[Ribosomal protein S15]], [[Ribosomal protein S17]], [[Ribosomal protein S2]], [[Ribosomal protein S20]], [[Ribosomal protein S3]], [[Ribosomal protein S4]], [[Ribosomal protein THX]] and [[Ribosome]] with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli] and [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. The January 2010 RCSB PDB [http://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''70S Ribosomes''  by David Goodsell is [http://dx.doi.org/10.2210/rcsb_pdb/mom_2010_1 10.2210/rcsb_pdb/mom_2010_1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2WDK OCA].
==See Also==
*[[Ribosomal protein S10]]
*[[Ribosomal protein S11]]
*[[Ribosomal protein S12]]
*[[Ribosomal protein S13]]
*[[Ribosomal protein S15]]
*[[Ribosomal protein S17]]
*[[Ribosomal protein S2]]
*[[Ribosomal protein S20]]
*[[Ribosomal protein S3]]
*[[Ribosomal protein S4]]
*[[Ribosomal protein THX]]
*[[Ribosome]]
==Reference==
<ref group="xtra">PMID:19363482</ref><references group="xtra"/>
[[Category: 70S Ribosomes]]
[[Category: Escherichia coli]]
[[Category: RCSB PDB Molecule of the Month]]
[[Category: Thermus thermophilus]]
[[Category: Kelley, A C.]]
[[Category: Loakes, D.]]
[[Category: Ramakrishnan, V.]]
[[Category: Voorhees, R M.]]
[[Category: Weixlbaumer, A.]]
[[Category: Coiled coil]]
[[Category: Metal-binding]]
[[Category: Mrna]]
[[Category: Ribonucleoprotein]]
[[Category: Ribosomal protein]]
[[Category: Ribosome]]
[[Category: Rna-binding]]
[[Category: Rrna-binding]]
[[Category: Translation]]
[[Category: Trna]]
[[Category: Trna-binding]]
[[Category: Zinc]]
[[Category: Zinc-finger]]

Latest revision as of 20:20, 24 May 2012

This Sandbox is Reserved from 05/22/2012, through 07/22/2012 for use in the course "BIOL 414" taught by Greg Buhrman at the North Carolina State University, Raleigh, NC USA. This reservation includes Sandbox Reserved 551 through Sandbox Reserved 590.
To get started:
  • Click the edit this page tab at the top. Save the page after each step, then edit it again.
  • Click the 3D button (when editing, above the wikitext box) to insert Jmol.
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More help: Help:Editing

Hi Alex, Here is your very own Protopedia page for pdb code: 2WDK. Your presentation date is scheduled for: June 11.

Have Fun!

Greg Buhrman


PDB ID 2wdk

Drag the structure with the mouse to rotate
2wdk, resolution 3.50Å ()
Ligands: , ,
Non-Standard Residues: ,
Related: 2wdl, 2wdm, 2wdn, 1hr0, 2v48, 1ibk, 2b64, 1xmq, 1ibl, 2b9m, 2uuc, 1pn8, 1xnr, 1dv4, 1hnz, 1rss, 2j02, 1j5e, 1jgq, 1i94, 2b9o, 1hnx, 2j00, 1i96, 2uu9, 1pn7, 2uub, 1vov, 1eg0, 1ibm, 1emi, 2uxb, 2vqe, 1g1x, 1i95, 2uua, 2v46, 1pnx, 1xnq, 1qd7, 1gix, 2vqf, 1jgo, 1jgp, 1n32, 2jl5, 2f4v, 1n34, 1n33, 1twt, 1pns, 2jl7, 1qzc, 2uxd, 1fka, 1yl4, 2uxc, 1n36, 1fjg, 1xmo, 1i97, 1hnw, 1l1u, 2wdg, 2wdh, 2wdi, 2wdj
Resources: FirstGlance, OCA, PDBsum, RCSB
Coordinates: save as pdb, mmCIF, xml



STRUCTURE OF THE THERMUS THERMOPHILUS 70S RIBOSOME IN COMPLEX WITH MRNA, PAROMOMYCIN, ACYLATED A- AND P-SITE TRNAS, AND E-SITE TRNA. THIS FILE CONTAINS THE 30S SUBUNIT A-,P-, AND E-SITE TRNAS AND PAROMOMYCIN FOR MOLECULE I.STRUCTURE OF THE THERMUS THERMOPHILUS 70S RIBOSOME IN COMPLEX WITH MRNA, PAROMOMYCIN, ACYLATED A- AND P-SITE TRNAS, AND E-SITE TRNA. THIS FILE CONTAINS THE 30S SUBUNIT A-,P-, AND E-SITE TRNAS AND PAROMOMYCIN FOR MOLECULE I.

Publication Abstract from PubMed

Protein synthesis is catalyzed in the peptidyl transferase center (PTC), located in the large (50S) subunit of the ribosome. No high-resolution structure of the intact ribosome has contained a complete active site including both A- and P-site tRNAs. In addition, although past structures of the 50S subunit have found no ordered proteins at the PTC, biochemical evidence suggests that specific proteins are capable of interacting with the 3' ends of tRNA ligands. Here we present structures, at 3.6-A and 3.5-A resolution respectively, of the 70S ribosome in complex with A- and P-site tRNAs that mimic pre- and post-peptidyl-transfer states. These structures demonstrate that the PTC is very similar between the 50S subunit and the intact ribosome. They also reveal interactions between the ribosomal proteins L16 and L27 and the tRNA substrates, helping to elucidate the role of these proteins in peptidyl transfer.

Insights into substrate stabilization from snapshots of the peptidyl transferase center of the intact 70S ribosome., Voorhees RM, Weixlbaumer A, Loakes D, Kelley AC, Ramakrishnan V, Nat Struct Mol Biol. 2009 May;16(5):528-33. Epub 2009 Apr 12. PMID:19363482

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

About this StructureAbout this Structure

2wdk is a 25 chain structure of Ribosomal protein S10, Ribosomal protein S11, Ribosomal protein S12, Ribosomal protein S13, Ribosomal protein S15, Ribosomal protein S17, Ribosomal protein S2, Ribosomal protein S20, Ribosomal protein S3, Ribosomal protein S4, Ribosomal protein THX and Ribosome with sequence from Escherichia coli and Thermus thermophilus. The January 2010 RCSB PDB Molecule of the Month feature on 70S Ribosomes by David Goodsell is 10.2210/rcsb_pdb/mom_2010_1. Full crystallographic information is available from OCA.

See AlsoSee Also

ReferenceReference

[xtra 1]

  1. ↑ Voorhees RM, Weixlbaumer A, Loakes D, Kelley AC, Ramakrishnan V. Insights into substrate stabilization from snapshots of the peptidyl transferase center of the intact 70S ribosome. Nat Struct Mol Biol. 2009 May;16(5):528-33. Epub 2009 Apr 12. PMID:19363482 doi:10.1038/nsmb.1577

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA, Greg Buhrman
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