MMG409LectureNotes - Skip prokaryotic info unless presented...

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Skip: prokaryotic info, unless presented in lecture plant-related info colored text boxes titled “KEY EXPERIMENT” or “MOLECULAR MEDICINE” pages the instructor says to skip CHAPTER 7 1/10 06 Fig. 7.3 -DNA footprinting- method for establishing where on DNA proteins bind -proteins that bind DNA include enzymes, TF’s, enhancers, and repressors -If you want to know what in that DNA makes proteins bind (protein ex: RNA polymerase) -End label DNA molecules, add DNase, it will cut, will not cut where proteins are so bands will be missing where protein is bound Fig. 7.4 -Transcription (E. coli polymerase) - (-) is upstream, (+) is downstream -sigma binds to promoter sequence (-10, -35), after 10 nucleotides are transcribed, it leaves -open promoter-proteins and enzymes have separated strands to be read by polymerase Table 7.1 re-mit-tance RNA polymerases are multi-unit enzymes driving transcription 1 2 3 rRNA mRNA tRNA Fig. 7.12 Formation of RNA polymerase II 3 major requirements of initiation of transcription -site specific activating proteins that find enhancer DNA regions -the common promoter-recognition complex, TFIID -the RNA polymerase II holoenzyme that binds the Inr DNA site -TFIID, then comes in TFIIB, RNA polymerase attaches, then F, E, H-core promoter Inhibitor is a piece of DNA, helps start transcription Fig. 7.14 Polymerase II-Mediator complexes 1. Mediator complex binds to the non-phosphorylated C terminal domain (CTD) of polymerase II 2. Mediator complex is released upon phosphorylation of the CTD (after the start of transcription) 3. The CTD of polymerase II then binds molecules relevant to mRNA elongation and processing -Some mediator complexes act as a bridge, conveying regulatory info from enhancers and
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other control elements to the general transcription machinery. -RNA polymerase II has been the focus bc it is responsible for synthesis of mRNA from protein coding genes 1/12/06 Fig. 7.16 Polymerase I and TF’s at the initiation site of rRNA transcription -the TF’s bind cooperatively to the promoter and rescruit polymerase I -one of the subunits of the SL1 tetramer is TBP. So, TBP is required in the Polymerase I PIC despite the fact that the promoter of rRNA genes lack a TATA box PIC- Pre initiation complext (terminary) SL1- sectivity factor 1 UBF- upstream binding factor Transcription termination by RNA polymerase I and RNA polymeras III Termination of Transcription by Polymerase I is a 2-step process; 1) pausing of the transcript-elongating complex and 2) release of both pre-rRNA and Polymerase I from the template In the mouse, pausing is mediated by TTF1 (transc. term. factor 1) bound to the Sal box terminator (18 bp long DNA elements that contain S1… Fig. 7.17 Polymerase III and relevant TF’s -Transcription of 5S rRNA and tRNA genes -The promoters are within the transcribed sequence Transcription of U6 snRNA -SNAP is a cooperative factor -The promoter is upstream of the transcribed sequence -SNAPc snRNA activating protein complex. The binding of SNAPc to DNA requires
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This note was uploaded on 03/19/2008 for the course MMG 409 taught by Professor Arvidson during the Spring '08 term at Michigan State University.

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MMG409LectureNotes - Skip prokaryotic info unless presented...

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