User:Cody Couperus/Sandbox 3

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(New page: ==Cathepsin D== ==Introduction== Cathepsin D (CD) is an apartic acid protease generally found in the lysosome of cells, but is also found intracellularly, extracellularly, and in endosom...)
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==Cathepsin D==
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==RNA==
==Introduction==
==Introduction==
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Cathepsin D (CD) is an apartic acid protease generally found in the lysosome of cells, but is also found intracellularly, extracellularly, and in endosomes. Its pH optimum is at an acidic pH (4-6).
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-single stranded polynucleic acid
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CD important for protein degradation, but many physiologically relavent functions have been idenfified.
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-Transcribed from DNA by family of RNA polymerases
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It is a heterodimer, with a 14 kD light chain and 34 kD heavy chain, activated from Procathepsin D autocatalytically and with assistance from cysteine proteases. Between the two lobes is an extended active site that accomidates 8 residues. CD specificity is gained by active site preference for hydrophobic residues. At the base of the active site are the two aspartate residues involved in catalysis of peptide bonds.
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-Functional roles include functional transfer for protein synthesis, catalysis, cellular regulation
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-Degraded by....
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==Products of Transcription==
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Names/functional roles
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==Post/Co-transcriptional modifications==
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==Degradation pathways==
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==Structure General==
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Summary of - how to build a 3D structure from a linear medium. Practical considerations. How to think about
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folded polymers.
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Backbone
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Ribose
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Bases + base pairing
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Forces: stacking (VDW), hydrogen bond, hydrophobic effect, electrostatic
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==Primary Structure==
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Sequence
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Maybe some statistics?
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==Structure (building blocks)==
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Stem loop
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Coaxial helices
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Kink-turn
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Hook-turn
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Ribose zipper
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Kissing loops
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Hairpin loops
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Pseudoknots
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A-minor interactions
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A-major interactions
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Tetraloop-receptor motifs
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T-loop motif
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Triple stranded RNA
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RNA quadruplex structuers
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Metal chelation

Current revision

Contents

RNA

Introduction

-single stranded polynucleic acid

-Transcribed from DNA by family of RNA polymerases

-Functional roles include functional transfer for protein synthesis, catalysis, cellular regulation

-Degraded by....

Products of Transcription

Names/functional roles

Post/Co-transcriptional modifications

Degradation pathways

Structure General

Summary of - how to build a 3D structure from a linear medium. Practical considerations. How to think about folded polymers.

Backbone

Ribose

Bases + base pairing

Forces: stacking (VDW), hydrogen bond, hydrophobic effect, electrostatic

Primary Structure

Sequence

Maybe some statistics?

Structure (building blocks)

Stem loop

Coaxial helices

Kink-turn

Hook-turn

Ribose zipper

Kissing loops

Hairpin loops

Pseudoknots

A-minor interactions

A-major interactions

Tetraloop-receptor motifs

T-loop motif

Triple stranded RNA

RNA quadruplex structuers

Metal chelation

Proteopedia Page Contributors and Editors (what is this?)

Cody Couperus

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