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1. User:Jeremy Zucker (8,647 bytes)
   1: ...gration, modeling, and simulation of metabolic pathways since 2002.
   2: ...l 1 to represent metabolic pathways in the web ontology language (OWL).
   4: ...n Nature Molecular Systems Biology paper\cite{Feist2008Genome}.
   6: ...us pneumonia, Clostridium phytofermentans, and M. tuberculosis.
   8: ...n the feasible space of possible steady-state solutions.
2. User:Jeremy Jovellanos (2,942 bytes)
   1: == Abstract ==
   3: ...rame='true' align='right' caption='Insert caption here' />
   5: ...ay help to meet the world’s rising demands on natural resources.
   10: ... proteins while keeping in mind structure and function.
   12: *[[user:Jeremy Jovellanos/Sandbox1 Desaturase]]
3. User:R. Jeremy Johnson (1,221 bytes)
   1: *Associate Professor of Chemistry
   2: *Butler University
   3: ...ecialties: Biochemistry, Chemical Biology, and Bacteriology
   5: ...tdoctoral Fellow - Harvard University: Erin K. O'Shea
   6: ...mistry - University of Wisconsin-Madison: Ronald T. Raines
4. User:R. Jeremy Johnson/Sandbox 1 (3,133 bytes)
   1: ...SA' scene ='User:R._Jeremy_Johnson/Sandbox_1/Basic_ribonuclease/1' />
   2: ...box_1/Basic_ribonuclease/1'>Ribonuclease A - Structure 7RSA</scene>
   3: [http://www.butler.edu]
   5: ...es are concentrated externally on either side of the membrane.
   9: ...or NTCP. Nature. 2022 Jun;606(7916):1021-1026. [https://dx.doi.org/10.1038/s41586-022-04845-4 DOI: 10...
5. User:Jeremy Chieh-Yu Chung (87 bytes)
   1: ...rgraduate majoring in biochemistry at the University of Wisconsin - Madison
6. User:Jeremy Chieh-Yu Chung/Sandbox 1 (9,572 bytes)
   1: =='''RAS PROTEIN'''==
   3: ===INTRODUCTION===
   4: ...tly being heavily investigated as a possible target for novel drugs.
   5: ...es such as proliferation, survival and differentiation in cells.
   7: ===HISTORY===
7. User:R. Jeremy Johnson/NMR (18,207 bytes)
   1: ...(blue) to carboxy (red). Active site shown in white. ]]
   3: == Introduction ==
   5: ...oon. |2AAS-Cartoon NMR structure of bovine pancreatic Ribonuclease A.]]
   9: ...he actual, solution enzyme (folding, flexibility etc.)
   11: ...observable only by NMR, such as internal flexibility and 3D domain swapping.
8. User:R. Jeremy Johnson/Oligomers (9,551 bytes)
   3: ==Introduction==
   4: [[Image:2D_RNaseA.png|300px|left|thumb|RNase A minor dimer, [[1a2w]]]]
   5: ... as models to understand the possible cause of Alzheimer's.
   8: ...aption='Ribonuclease A Minor Dimer' scene='Sandbox_Reserved_200/Minor_dimer/4' />
   9: ...scene name='Sandbox_Reserved_200/Major_dimer/9'>N-terminus</scene>.
9. User:R. Jeremy Johnson/RNaseS RNaseB (10,549 bytes)
   1: == Ribonuclease Derivatives ==
   3: ...se S) and where the enzyme is glycosylated at position 34 (Ribonuclease B).
   5: == Introduction to Ribonuclease S ==
   7: ...relation between protein folding and enzyme activity.
   9: == Structure and Biology of RNase S ==
10. User:R. Jeremy Johnson/RNaseA (19,473 bytes)
    1: == '''Introduction''' ==
    2: ... the transition state (Blue: Lys41). Figure generated via ''Pymol'' ]]
    4: ...ree-dimensional structure is fully determined by its amino acid sequence.<ref name="Raines" />
    6: ...tructure and protein folding pathways of other proteins.<ref name="Raines" />
    8: ...s in angiogenin have been linked to amyotrophic lateral sclerosis (ALS).<ref>PMID:16501576</ref>
11. User:R. Jeremy Johnson/Folding Synthesis (19,640 bytes)
    1: == '''Introduction''' ==
    2: ...bel_prizes/chemistry/laureates/1984/merrifield-lecture.pdf]
    4: == '''Protein Folding''' ==
    5: ... Pro-114, Pro-117, Cys-58, and Cys-72 are highlighted and labeled.]]
    6: ...inciples of Biochemistry. W. H. Freeman, fifth edition.' </ref>.
12. User:Jeremy A. Hammett (216 bytes)
    1: * Full Real Name:Jeremy Hammett
    3: * Position:student
    5: * Institution (NO ABBREVIATIONS):University of Tennesseee
    7: ... State/Province, Country:Knoxville, TN, United States
    9: * Field of Expertise or Study:biochemistry
13. User:R. Jeremy Johnson/Sandbox 2 (682 bytes)
    3: ... the transition state (Blue: Lys41). Figure generated via ''Pymol'' ]]
    5: [[Image:Binding_Pocket_Surface.png|300px|left|thumb|Figure Legend]]
    15: Introduction to Proteopedia:
    17: ...ption='RibonucleaseA' scene='57/573122/Rnase_test_jeremy/1' />
    19: ...Rnase_test_jeremy/1'>TextToBeDisplayed</scene> proteopedia page.
14. User:R. Jeremy Johnson/Sandbox 3 (376 bytes)
    1: [[Image:RNase_A.jpg|300 px|right|thumb|RNase A]]
    7: ==Structure==
    9: ...d='7RSA' size='340' frame='true' align='right' caption='RNase A' scene='57/579508/7rsa/1'>
    11: <scene name='57/579508/7rsa/3'>How about another view?</scene>
    13: ... this section will appear adjacent to the 3D structure and will be scrollable.
15. User:R. Jeremy Johnson/CH462:Biochemistry II Butler University (2,600 bytes)
    1: ... by Butler University Students in CH462: Biochemistry II==
    3: ... a common protein class. Links to pages for student prepared pages are given below:
    5: ...edia entry: Bovine pancreatic ribonuclease a. Biochem. Mol. Biol. Educ., 40: 75. doi: 10.1002/bmb.205...
    6: ...oteopedia.org/wiki/index.php/RNase_A Introduction to RNase A]
    7: *[http://www.proteopedia.org/wiki/index.php/RNase_A_Oligomers RNase A Oligomers]
16. Category:Jeremy, R H.T (44 bytes)
    1: List of pages with the keyword Jeremy, R H.T
17. User:R. Jeremy Johnson/Sandbox 4 (1,659 bytes)
    1: ==Your Heading Here (maybe something like 'Structure')==
    2: ...'340' side='right' caption='Caption for this structure' scene=''>
    3: ...page''' to modify. Be careful with the < and > signs.
    4: ...icle describing Jmol <ref>PMID:21638687</ref> to the rescue.
    6: == Function ==
18. User:R. Jeremy Johnson/Neurotensin (20,102 bytes)
    1: ...Id=4XEE 4XEE])' scene='72/721548/Whole_protein_no_t4l/8'>
    3: ==Neurotensin Receptor (NTSR1)==
    5: == Introduction ==
    6: ... body, these proteins have become major drug targets.<ref name="Fang">PMID:23573662</ref>
    8: ...acy than its full-length counterpart<ref name="SONT"/>.
19. User:R. Jeremy Johnson/GPR40 (21,326 bytes)
    1: ...PR40 (hGPR40), also known as Free Fatty Acid Receptor 1 (FFAR1)==
    2: ... Fatty Acid Receptor 1 (FFAR1).' scene='72/727085/Hgpr40_begin/2'>
    5: ...13.1 including GPCR41, 42, and 43.<ref name="Burant">PMID:23882043</ref>
    7: == Function ==
    8: ...d type 2 diabetes and thus is a popular drug target.
20. User:R. Jeremy Johnson/Lysophosphatidic acid receptor 1 (20,516 bytes)
    1: ==Lysophosphatidic Acid Receptor 1==
    2: ... [http://www.rcsb.org/pdb/explore/explore.do?structureId=4z34 4Z34]) ' scene='72/721545/Overall/2'>
    4: == Introduction ==
    5: ...lipid Receptors: Signaling and Biochemistry.” John Wiley & Sons, Inc. (2013) pp.i-xviii. 5 Feb. 201...
    6: ...lighted in red. The added bRIL protein is highlighted in orange.]]

Page text matches

1. 1v4u (4,481 bytes)
   2: ==Crystal structure of bluefin tuna carbonmonoxy-hemoglobin==
   3: ...side='right'caption='[[1v4u]], [[Resolution|resolution]] 2.00Å' scene=''>
   4: == Structural highlights ==
   5: ...[https://proteopedia.org/fgij/fg.htm?mol=1V4U FirstGlance]. <br>
   6: ...raction, [[Resolution|Resolution]] 2Å</td></tr>
2. 1v4w (4,433 bytes)
   2: ...ructure of bluefin tuna hemoglobin deoxy form at pH7.5==
   3: ...side='right'caption='[[1v4w]], [[Resolution|resolution]] 1.70Å' scene=''>
   4: == Structural highlights ==
   5: ...[https://proteopedia.org/fgij/fg.htm?mol=1V4W FirstGlance]. <br>
   6: ...ction, [[Resolution|Resolution]] 1.7Å</td></tr>
3. 1v4x (4,433 bytes)
   2: ...ructure of bluefin tuna hemoglobin deoxy form at pH5.0==
   3: ...side='right'caption='[[1v4x]], [[Resolution|resolution]] 1.60Å' scene=''>
   4: == Structural highlights ==
   5: ...[https://proteopedia.org/fgij/fg.htm?mol=1V4X FirstGlance]. <br>
   6: ...ction, [[Resolution|Resolution]] 1.6Å</td></tr>
4. Sandbox Reserved 390 (7,877 bytes)
   1: ...an topoisomerase II beta in complex with DNA and etoposide'''==
   2: ...abilized by the anticancer drug etoposide. (PDB entry 3QX3)' scene=''>
   3: ...lso, to describe the mechanisms of resistance of etoposide.
   6: __TOC__
   7: ==INTRODUCTION ==
5. Student Projects (6,606 bytes)
   1: ... the ''Find'' function of your browser (Windows: Ctrl-F; Mac: Cmd-F).
   5: ...ults. Student contributors are acknowledged on each page.
   7: ...etrahydrofolate reductase]] and [[Thymidylate synthase]].
   11: ... [[Tutorial:The opioid receptor, a molecular switch]].
   13: ...h abstract. Published also as http://hdl.handle.net/10017/27238)''
6. Temp (19,835 bytes)
   1: ...lex with thymidilic acid DNA tetramer (pink), [[1rta]]' >
   3: ...ey include RNase II D, T, PH, Polynucleotide Phosphorylase (PNPase) and oligoribonuclease (ORNase)....
   4: * '''RNase A''' cleaves C or U of single-stranded RNA (ssRNA).<br />
   6: * '''RNase D''' degrades 3'-end pre-tRNA.<br />
   7: * '''RNase H''' cleaves RNA/DNA double-strand to produce ssDNA.<br />
7. Proteopedia:News (22,865 bytes)
   1: ...ithin''' Proteopedia, please see [[Proteopedia:What's New]].
   3: ...dd New Items at the Top of Each Section and Date Them, Please!==
   5: ...w. Subheadings below ''Statistics'' are in alphabetical order.
   7: ==Statistics==
   9: ...ge has been viewed is displayed at the bottom of the page.
8. User:Jeremy Zucker (8,647 bytes)
   1: ...gration, modeling, and simulation of metabolic pathways since 2002.
   2: ...l 1 to represent metabolic pathways in the web ontology language (OWL).
   4: ...n Nature Molecular Systems Biology paper\cite{Feist2008Genome}.
   6: ...us pneumonia, Clostridium phytofermentans, and M. tuberculosis.
   8: ...n the feasible space of possible steady-state solutions.
9. User:Wayne Decatur/SandboxRibosome (10,498 bytes)
   1: [[Image:SSU front and LSU front side by side white backgroundSMALL.jpg|middle|500px]]<br>
   4: ...re of 70S white background spacefill tRNAS.jpg|left|300px]]<br />
   8: '''The Ribosome'''<br>
   9: '''The protein synthesis machine of cells''' <br>
   10: '''shown with the 3 transfer RNAs and messenger RNA bound.'''
10. Ribosome (13,948 bytes)
    1: ..._Decatur/SandboxRibosome/Bothmodels6/1' caption='The Ribosome ([[4v42]])'>
    2: __TOC__
    3: ==Introduction==
    4: ...id at a time, into newly synthesized polypeptide chains.
    5: *'''30S ribosome''' - prokaryote small subunit
11. User:Jeremy Jovellanos (2,942 bytes)
    1: == Abstract ==
    3: ...rame='true' align='right' caption='Insert caption here' />
    5: ...ay help to meet the world’s rising demands on natural resources.
    10: ... proteins while keeping in mind structure and function.
    12: *[[user:Jeremy Jovellanos/Sandbox1 Desaturase]]
12. User:R. Jeremy Johnson (1,221 bytes)
    1: *Associate Professor of Chemistry
    2: *Butler University
    3: ...ecialties: Biochemistry, Chemical Biology, and Bacteriology
    5: ...tdoctoral Fellow - Harvard University: Erin K. O'Shea
    6: ...mistry - University of Wisconsin-Madison: Ronald T. Raines
13. Sandbox Reserved 196 (5,090 bytes)
    1: <!-- PLEASE DO NOT DELETE THIS TEMPLATE -->
    2: {{Template:Johnson_CH462_Spring2011}}
    3: <!-- PLEASE ADD YOUR CONTENT BELOW HERE -->
    5: ...ption='3D picture of RNase B dimer' scene='Sandbox_Reserved_196/Rbb_basic/1' name='1rbb' />
    7: == Introduction ==
14. User:Nathan Clarke (113 bytes)
    1: *I am a student at Butler University
    2: *Biology and Chemistry Major
    3: *Student of Dr. R. Jeremy Johnson
    4: *Class CH 462
15. User:Carissa Fuller (171 bytes)
    1: ... are both Chemistry/Pre-Med majors, and are currently juniors.
16. User:Lexi Gehring (234 bytes)
    1: .... I am currently pursuing both biology and chemistry degrees.
17. User:Benjamin Trefilek (110 bytes)
    1: Undergraduate Chemistry Major at Butler University.
    2: In Dr. Jeremy Johnson's Biochem: Central Metabolism class.
18. User:Melanie Clark (189 bytes)
    1: ...tral Metabolism. My professor is Dr. R. Jeremy Johnson.
19. Ribonuclease (6,386 bytes)
    1: ...lex with thymidylic acid DNA tetramer (pink), [[1rta]]' >
    2: == Function ==
    3: ...s''' remove terminal nucleotide from the ends of the RNA molecule. <br />
    4: ...is]], [[RNaseA Nobel Prizes]], [[User:R. Jeremy Johnson/RNaseA]] and [[RNase A NMR]].<br />
    6: ...'RNase D''' exonuclease which degrades 3'-end pre-tRNA<ref>PMID:6263886</ref>.<br />
20. User:Jakob Raphael Käppler/Sandbox218 (8,966 bytes)
    4: ...|350px|left|thumb| Spinach Ribulose-1,5-Bisphosphat Carboxylase Oxygenase, [[1aus]]]]
    6: ...complex with its substrate Ribulose-1,5-bisphosphate [[1rcx]] |}}
    7: ...Calvin-cycle4.svg Image of the Calvin cycle]was obtained from Wikipedia</ref>]]
    9: ... These two reactions are in competition to each other.
    15: ...d in the second step of the Calvin-cycle to build hexoses.

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