This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.

Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.


User:Cody Couperus/Sandbox 3

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Line 1: Line 1:
-
==Cathepsin D==
+
==RNA==
==Introduction==
==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....
-
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).
+
==Products of Transcription==
-
CD important for protein degradation, but many physiologically relavent functions have been idenfified.
+
Names/functional roles
-
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.
+
==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
-
==Activation==
+
==Primary Structure==
 +
Sequence
 +
Maybe some statistics?
-
==Catalytic Mechanism==
+
==Structure (building blocks)==
 +
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

Revision as of 18:46, 16 February 2016

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)

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

Retrieved from "http://52.214.119.220/wiki/index.php/User:Cody_Couperus/Sandbox_3"
Personal tools