User:Cody Couperus/Sandbox 3: Difference between revisions

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==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 21:46, 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)

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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