User:Cody Couperus/Sandbox 3: Difference between revisions

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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==
==RNA==


==Introduction==
==Introduction==


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).
-single stranded polynucleic acid


CD important for protein degradation, but many physiologically relavent functions have been idenfified.
-Transcribed from DNA by family of RNA polymerases


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.
-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

Latest revision as of 21:50, 16 February 2016

RNARNA

IntroductionIntroduction

-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 TranscriptionProducts of Transcription

Names/functional roles

Post/Co-transcriptional modificationsPost/Co-transcriptional modifications

Degradation pathwaysDegradation pathways

Structure GeneralStructure 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 StructurePrimary Structure

Sequence

Maybe some statistics?

Structure (building blocks)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

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