Transcrip)on Regula)on And Gene Expression in Eukaryotes Cycle G2 (lecture 13709) FS 2014 P Ma?hias & RG Clerc
|
|
|
- Ruth Bennett
- 5 years ago
- Views:
Transcription
1 Transcrip)on Regula)on And Gene Expression in Eukaryotes Cycle G2 (lecture 13709) FS 2014 P Ma?hias & RG Clerc P. Ma?hias, March 5th, 2014 The Basics of Transcrip-on (2) General Transcrip-on Factors: TBP/TFIID TBP Associated Factors: TAFs (Elonga-on of Transcrip-on) h?p://
2 GTFs: recognize the core promoter Factors needed for expression of nearly all Class II promoters Biochemical Fractionation (R. Roeder, Rockefeller University) led to identification of 6 fractions that contain proteins that permit correct transcription initiation by RNA pol II These fractions were labeled TF II: A, B, D, E, F, H. (Fraction C was an artefact.) Of these TFIID, TFIIA and TFIIB bind specific proximal elements (others such as TFIIH bind DNA but are not thought to have strict DNA sequence preference) TFIID nucleates the assembly of the pre-initation complex (PIC)
3 Eukaryotic Pol II promoter: upstream and core NF-kB Fos Oct-1 CBFA-1 CREB etc Transcription activators TATA INR RNAPII! TFIIH! TFIIF! TFIIE! TFIIA! TFIIB! TFIID! GENE upstream (regulatory, enhancer) core Basal machinery RNA PolII 12 TFIIA 3 TFIIB 1 TFIID (TBP) ca. 14 (1) TFIIE 2 TFIIF 2 TFIIH ca. 9
4 The core promoters in more detail BRE TATA box Initiator DPE G/CG/CG/CCGCC TATAAA PyPyANT/APyPy GA/TCGTG TFIIB TFIID TFIID TFIID TFIIA TBP TAF II 250 TAF II 150 TAF II 60 TAF II 40 TATA-containing TATA-less
5 TFIID TFIID is a mul-protein complex: TBP + TAFs (~10-14 different subunits) The subunit responsible for recognizing the TATA box is called TATA- Binding Protein ( TBP ) TBP can specifically bind to TATA- boxes on its own In vitro TBP is sufficient for basal transcrip-on, not for ac-vated transcrip-on
6 Akhtar and Veenstra Cell & Bioscience 2011, 1:23 h?p://
7 TBP: a GTF essential for all polymerases
8 TAFIIs of TFIID: mostly conserved proteins ranging from 30 à 250 kda
9
10 TBP-related factors
11 Akhtar and Veenstra Cell & Bioscience 2011, 1:23 h?p://
12 Akhtar and Veenstra Cell & Bioscience 2011, 1:23 h?p://
13 TBP-related factors
14 TBP-related factors specific complexes
15 Promoters with TBP and TRFs
16 Goodrich & Tjian, NRG Aug 2010
17 Albright and Tjian (2000). TAFs revisited: more data reveal new twists and confirm old ideas. Gene 242, 1-13.
18 Beyond TFIID: Multiple TAF complexes Albright and Tjian (2000). TAFs revisited: more data reveal new twists and confirm old ideas. Gene 242, 1-13.
19 Beyond TFIID: Multiple TAF complexes
20
21 Summary IIB! IIA! TAFs! TBP! TFIID! }! Recognize core promoter! IIF! Targets Pol II! to promoter! Modulates helicase! IIE! Helicase! IIH! helicase! CTD protein kinase! protein kinase! IIE! IIB! IIA! Pol IIa! TBP! Inr! IIH! CTD of large subunit of Pol II! IIF!
22 Cell and stage- specific dynamics in basal factors D Alessio et al., Molecular Cell 36, December 24, 2009
23 Goodrich & Tjian, NRG Aug 2010
24 Goodrich & Tjian, NRG Aug 2010
25 Gene bookmarking during mitosis Goodrich & Tjian, NRG Aug 2010
26 TATA vs TATA- less promoters 6000 PICs localized in yeast TATA- less promoters: have TATA- like elements S Buratowski, Nature Vol 483, 2012 (News & Views) See Rhee & Pugh, Nature Vol 483, 2012
27 A short story ca years ago: What are the in vivo targets of transcrip-on ac-vators??? East coast vs West coast, Yeast vs Metazoans, In vivo vs in vitro,...
28 TBP vs TFIID: TAFs as universal coactivators?? Sp1 + TFIID TBP GTFs + In vitro txn assay
29
30
31
32 Which part of the promoter is TAF responsive?
33
34
35 Transcription Elongation In vivo rates of transcription = nucl/min. Baseline in vitro rates = nucleotides/min. frequent pausing and arrests even with chromatin-free DNA Large number of proteins and protein complexes that regulate elongation of transcription Suppress pausing Promote pausing Overcome transcription arrest Enable elongation through chromatin
36 Elongation factors for RNA Pol II Suppress pausing and/or arrest TFIIF P-TEFb (CTD kinase) S II (TF II S) CSB (Cockayne syndrome binding pro.) ELL 1/2, Elongins certain transcription activators (e.g. heat shock factor) Promotes pausing/arrest DSIF (DRB sensitivity inducing factor) NELF (binds early during RNA elongation) Enable elongation through chromatin FACT RSF Elongator (HAT associated with Pol II)
37 Elongation NMCB, August 2006
38 Elongation
Transcription Regulation and Gene Expression in Eukaryotes FS08 Pharmacenter/Biocenter Auditorium 1 Wednesdays 16h15-18h00.
Transcription Regulation and Gene Expression in Eukaryotes FS08 Pharmacenter/Biocenter Auditorium 1 Wednesdays 16h15-18h00. Promoters and Enhancers Systematic discovery of transcriptional regulatory motifs
Three types of RNA polymerase in eukaryotic nuclei
Three types of RNA polymerase in eukaryotic nuclei Type Location RNA synthesized Effect of α-amanitin I Nucleolus Pre-rRNA for 18,.8 and 8S rrnas Insensitive II Nucleoplasm Pre-mRNA, some snrnas Sensitive
Transcrip)on Regula)on And Gene Expression in Eukaryotes Cycle G2 (lecture 13709) FS 2014 P MaFhias & RG Clerc
Transcrip)on Regula)on And Gene Expression in Eukaryotes Cycle G2 (lecture 13709) FS 2014 P MaFhias & RG Clerc P. MaFhias, March 26th, 2014 Co- ac&vators / co- repressors Cell- specific / factor- specific
Chapter 20. Initiation of transcription. Eukaryotic transcription initiation
Chapter 20. Initiation of transcription Eukaryotic transcription initiation 2003. 5.22 Prokaryotic vs eukaryotic Bacteria = one RNA polymerase Eukaryotes have three RNA polymerases (I, II, and III) in
Предсказание и анализ промотерных последовательностей. Татьяна Татаринова
Предсказание и анализ промотерных последовательностей Татьяна Татаринова Eukaryotic Transcription 2 Initiation Promoter: the DNA sequence that initially binds the RNA polymerase The structure of promoter-polymerase
SUPPLEMENTARY INFORMATION
doi:10.1038/nature11991 Supplementary Figure 1 - Refinement strategy for PIC intermediate assemblies by negative stain EM. The cryo-negative stain structure of free Pol II 1 (a) was used as initial reference
THE TRANSCRIPTION MACHINERY IN SCHIZOSACCHAROMYCES POMBE AND ITS REGULATION
From the Department of Medical Nutrition Karolinska Institutet, Stockholm, Sweden THE TRANSCRIPTION MACHINERY IN SCHIZOSACCHAROMYCES POMBE AND ITS REGULATION Henrik Spåhr Stockholm 2004 Published and printed
RNA Synthesis and Processing
RNA Synthesis and Processing Introduction Regulation of gene expression allows cells to adapt to environmental changes and is responsible for the distinct activities of the differentiated cell types that
Regulation of Transcription in Eukaryotes. Nelson Saibo
Regulation of Transcription in Eukaryotes Nelson Saibo saibo@itqb.unl.pt In eukaryotes gene expression is regulated at different levels 1 - Transcription 2 Post-transcriptional modifications 3 RNA transport
Molecular Biology of the Cell
Alberts Johnson Lewis Raff Roberts Walter Molecular Biology of the Cell Fifth Edition Chapter 6 How Cells Read the Genome: From DNA to Protein Copyright Garland Science 2008 Figure 6-1 Molecular Biology
Gene regulation III Biochemistry 302. Bob Kelm March 2, 2005
Gene regulation III Biochemistry 302 Bob Kelm March 2, 2005 oncept of transcription ground state Prokaryotes: permissive Eukaryotes: restricted DNA structure: chromatin silencing Requirement for sitespecific
Temperature Dependent Transcription Initiation in Archaea: Interplay between Transcription Factor B and Promoter Sequence
Portland State University PDXScholar Dissertations and Theses Dissertations and Theses Spring 5-22-2014 Temperature Dependent Transcription Initiation in Archaea: Interplay between Transcription Factor
Welcome to Class 21!
Welcome to Class 21! Introductory Biochemistry! Lecture 21: Outline and Objectives l Regulation of Gene Expression in Prokaryotes! l transcriptional regulation! l principles! l lac operon! l trp attenuation!
Biology. Biology. Slide 1 of 26. End Show. Copyright Pearson Prentice Hall
Biology Biology 1 of 26 Fruit fly chromosome 12-5 Gene Regulation Mouse chromosomes Fruit fly embryo Mouse embryo Adult fruit fly Adult mouse 2 of 26 Gene Regulation: An Example Gene Regulation: An Example
How eukaryotic genes are transcribed
Critical Reviews in Biochemistry and Molecular Biology, 2009; 44(2 3): 117 141 REVIEW ARTICLE How eukaryotic genes are transcribed Bryan J. Venters and B. Franklin Pugh Center for Eukaryotic Gene Regulation,
Yehuda M. Danino, Dan Even, Diana Ideses, Tamar Juven-Gershon
Accepted Manuscript The core promoter: at the heart of gene expression Yehuda M. Danino, Dan Even, Diana Ideses, Tamar Juven-Gershon PII: S1874-9399(15)00090-5 DOI: doi: 10.1016/j.bbagrm.2015.04.003 Reference:
Prokaryotic Regulation
Prokaryotic Regulation Control of transcription initiation can be: Positive control increases transcription when activators bind DNA Negative control reduces transcription when repressors bind to DNA regulatory
Genome-Wide Computational Prediction and Analysis of Core Promoter Elements across Plant Monocots and Dicots
Genome-Wide Computational Prediction and Analysis of Core Promoter Elements across Plant Monocots and Dicots Sunita Kumari 1, Doreen Ware 1,2 * 1 Cold Spring Harbor Laboratory, Cold Spring Harbor, New
Molecular Biology of the Cell
Alberts Johnson Lewis Raff Roberts Walter Molecular Biology of the Cell Fifth Edition Chapter 6 How Cells Read the Genome: From DNA to Protein Copyright Garland Science 2008 Figure 6-1 Molecular Biology
12-5 Gene Regulation
12-5 Gene Regulation Fruit fly chromosome 12-5 Gene Regulation Mouse chromosomes Fruit fly embryo Mouse embryo Adult fruit fly Adult mouse 1 of 26 12-5 Gene Regulation Gene Regulation: An Example Gene
Eukaryotic Gene Expression
Eukaryotic Gene Expression Lectures 22-23 Several Features Distinguish Eukaryotic Processes From Mechanisms in Bacteria 123 Eukaryotic Gene Expression Several Features Distinguish Eukaryotic Processes
Gene Regulation and Expression
THINK ABOUT IT Think of a library filled with how-to books. Would you ever need to use all of those books at the same time? Of course not. Now picture a tiny bacterium that contains more than 4000 genes.
Macromolecular assemblies in DNAassociated
Macromolecular assemblies in DNAassociated functions DNA structures: Chromatin (nucleosome) Replication complexes: Initiation, progression Transcription complexes: Initiation, splicing, progression Voet
The architecture of transcription elongation A crystal structure explains how transcription factors enhance elongation and pausing
The architecture of transcription elongation A crystal structure explains how transcription factors enhance elongation and pausing By Thomas Fouqueau and Finn Werner The molecular machines that carry out
Acknowledgements. Past F. Asturias H. Boeger J. Griesenbeck
Acknowledgements M. Azubel Y. Lorch D. Bushnell B. Maier-Davis G. Calero P. Robinson R. Davis J. Sexton A. Ehrensberger H. Spahr B. Gibbons S. Strattan P. Jadzinsky Y. Takagi C. Kaplan D. Wang G. Kornberg
S1 Gene ontology (GO) analysis of the network alignment results
1 Supplementary Material for Effective comparative analysis of protein-protein interaction networks by measuring the steady-state network flow using a Markov model Hyundoo Jeong 1, Xiaoning Qian 1 and
Topic 4: Equilibrium binding and chemical kinetics
Topic 4: Equilibrium binding and chemical kinetics Outline: Applications, applications, applications use Boltzmann to look at receptor-ligand binding use Boltzmann to look at PolII-DNA binding and gene
UE Praktikum Bioinformatik
UE Praktikum Bioinformatik WS 08/09 University of Vienna 7SK snrna 7SK was discovered as an abundant small nuclear RNA in the mid 70s but a possible function has only recently been suggested. Two independent
Transcription Regulation And Gene Expression in Eukaryotes UPSTREAM TRANSCRIPTION FACTORS
Transcription Regulation And Gene Expression in Eukaryotes UPSTREAM TRANSCRIPTION FACTORS RG. Clerc March 26. 2008 UPSTREAM TRANSCRIPTION FACTORS Experimental approaches DNA binding domains (DBD) Transcription
Open Research Online The Open University s repository of research publications and other research outputs
Open Research Online The Open University s repository of research publications and other research outputs Regulation Of Transcription By RNA Polymerase II In S. pombe Thesis How to cite: Gopalan, Sneha
FISSION YEAST MEDIATOR COMPLEX AND ITS ROLE IN TRANSCRIPTIONAL REGULATION
From the DEPARTMENT OF LABORATORY MEDICINE Karolinska Institutet, Stockholm, Sweden FISSION YEAST MEDIATOR COMPLEX AND ITS ROLE IN TRANSCRIPTIONAL REGULATION Olga Khorosjutina Stockholm 2011 Published
Basal transcription machinery: role in regulation of stress response in eukaryotes
Transcriptional regulation in response to stress in eukaryotes 569 Basal transcription machinery: role in regulation of stress response in eukaryotes *PARAG SADHALE, JIYOTI VERMA and ARUNA NAOREM Department
Eukaryotic Gene Expression by RNA Polymerase II
1 1 Eukaryotic Gene Expression by RNA Polymerase II Geetha Durairaj, 1,3, Shivani Malik, 2,3, and Sukesh R. Bhaumik 3 1 University of California, Department of Biological Chemistry, 825 Health Sciences
Incorporation of D osophila TAF110 into the yeast TFIID complex does not permit the Sp1 glutamine-rich activation domain to function in i o
Incorporation of D osophila TAF110 into the yeast TFIID complex does not permit the Sp1 glutamine-rich activation domain to function in i o Marie Keaveney and Kevin Struhl* Department of Biological Chemistry
The Eukaryotic Genome and Its Expression. The Eukaryotic Genome and Its Expression. A. The Eukaryotic Genome. Lecture Series 11
The Eukaryotic Genome and Its Expression Lecture Series 11 The Eukaryotic Genome and Its Expression A. The Eukaryotic Genome B. Repetitive Sequences (rem: teleomeres) C. The Structures of Protein-Coding
Lecture 12. Eukaryotic gene regulation: Co-transcriptional and post-transcriptional modifications of pre messenger RNA - II
Lecture 12 Eukaryotic gene regulation: Co-transcriptional and post-transcriptional modifications of pre messenger RNA - II EXON EXON EXON EXON EXON EXON A A A A A A A A A Polyadenylation of mrna takes
A. Eukaryotic Gene Expression is a Multi-Step Process
rrfie important tliing in science is not so mucli to o6tain new facts as to discover new ways of tliin/ijng a6out tliem. SirWi[[iam CBragg (1862-1942) INTRODUCTION A. Eukaryotic Gene Expression is a Multi-Step
Molecular Biology of the Cell
Alberts Johnson Lewis Raff Roberts Walter Molecular Biology of the Cell Fifth Edition Chapter 6 How Cells Read the Genome: From DNA to Protein Copyright Garland Science 2008 Figure 6-1 Molecular Biology
Transcription initiation of stress (heat-shock) genes in archaea
Transcription initiation of stress (heat-shock) genes in archaea A.J.L. Macario, E. Conway de Macario Wadsworth Center, New York State Department of Health; and Department of Biomedical Sciences, The University
CONTROL OF TRANSCRIPTION INITIATION BY THE STRESS ACTIVATED Hog1 KINASE
Meritxell Zapater i Enrique Tesi Doctoral 2006 CONTROL OF TRANSCRIPTION INITIATION BY THE STRESS ACTIVATED Hog1 KINASE Memòria presentada per a optar al títol de Doctor per la Universitat Pompeu Fabra
Crystal structures of the complete 12-subunit RNA polymerase II and its subcomplex Rpb4/7, and modeling of RNA polymerases I and III
Dissertation zur Erlangung des Doktorgrades der Fakultät für Chemie und Pharmazie der Ludwig-Maximilians-Universität München Crystal structures of the complete 12-subunit RNA polymerase II and its subcomplex
From Gene to Protein
From Gene to Protein Gene Expression Process by which DNA directs the synthesis of a protein 2 stages transcription translation All organisms One gene one protein 1. Transcription of DNA Gene Composed
A Unified Theory of Gene Expression
Cell, Vol. 108, 439 451, February 22, 2002, Copyright 2002 by Cell Press A Unified Theory of Gene Expression Review George Orphanides 1 and Danny Reinberg 2,3 of metabolic enzymes are often regulated directly
Regulation of Transcription in Eukaryotes
Regulation of Transcription in Eukaryotes Leucine zipper and helix-loop-helix proteins contain DNA-binding domains formed by dimerization of two polypeptide chains. Different members of each family can
Interaction of the Mediator Head Module with RNA Polymerase II
Article Interaction of the Mediator Head Module with RNA Polymerase II Gang Cai, 1,5 Yuriy L. Chaban, 1,6 Tsuyoshi Imasaki, 2 Julio A. Kovacs, 3 Guillermo Calero, 4,7 Pawel A. Penczek, 3 Yuichiro Takagi,
Eukaryotic Gene Expression: Basics and Benefits Prof. P N RANGARAJAN Department of Biochemistry Indian Institute of Science Bangalore
Eukaryotic Gene Expression: Basics and Benefits Prof. P N RANGARAJAN Department of Biochemistry Indian Institute of Science Bangalore Module No #04 Lecture No # 12 Eukaryotic gene Regulation: Co-transcriptional
Exam 4 ID#: July 7, 2008
Biology 4361 Name: KEY Exam 4 ID#: July 7, 2008 Multiple choice (one point each; indicate the best answer) 1. RNA polymerase II is not able to transcribe RNA unless a. it is first bound to TFIIB. b. its
Steven Hahn Curriculum Vitae
Steven Hahn Curriculum Vitae CONTACT INFORMATION Fred Hutchinson Cancer Research Center 1100 Fairview Ave N. PO Box 19024, Mailstop A1-162. Seattle, WA 98109 Phone 206-667-5261 email: shahn@fredhutch.org
3.B.1 Gene Regulation. Gene regulation results in differential gene expression, leading to cell specialization.
3.B.1 Gene Regulation Gene regulation results in differential gene expression, leading to cell specialization. We will focus on gene regulation in prokaryotes first. Gene regulation accounts for some of
RNA Polymerase I Contains a TFIIF-Related DNA-Binding Subcomplex
Molecular Cell, Volume 39 Supplemental Information RNA Polymerase I Contains a TFIIFRelated DNABinding Subcomplex Sebastian R. Geiger, Kristina Lorenzen, Amelie Schreieck, Patrizia Hanecker, Dirk Kostrewa,
Chapter 9 DNA recognition by eukaryotic transcription factors
Chapter 9 DNA recognition by eukaryotic transcription factors TRANSCRIPTION 101 Eukaryotic RNA polymerases RNA polymerase RNA polymerase I RNA polymerase II RNA polymerase III RNA polymerase IV Function
Translation and Operons
Translation and Operons You Should Be Able To 1. Describe the three stages translation. including the movement of trna molecules through the ribosome. 2. Compare and contrast the roles of three different
Review Article The Roles of the Paf1 Complex and Associated Histone Modifications in Regulating Gene Expression
SAGE-Hindawi Access to Research Genetics Research International Volume 2011, Article ID 707641, 15 pages doi:10.4061/2011/707641 Review Article The Roles of the Paf1 Complex and Associated Histone Modifications
Transport between cytosol and nucleus
of 60 3 Gated trans Lectures 9-15 MBLG 2071 The n GATED TRANSPORT transport between cytoplasm and nucleus (bidirectional) controlled by the nuclear pore complex active transport for macro molecules e.g.
GCD3033:Cell Biology. Transcription
Transcription Transcription: DNA to RNA A) production of complementary strand of DNA B) RNA types C) transcription start/stop signals D) Initiation of eukaryotic gene expression E) transcription factors
Old FINAL EXAM BIO409/509 NAME. Please number your answers and write them on the attached, lined paper.
Old FINAL EXAM BIO409/509 NAME Please number your answers and write them on the attached, lined paper. Gene expression can be regulated at several steps. Describe one example for each of the following:
Chapter 15 Active Reading Guide Regulation of Gene Expression
Name: AP Biology Mr. Croft Chapter 15 Active Reading Guide Regulation of Gene Expression The overview for Chapter 15 introduces the idea that while all cells of an organism have all genes in the genome,
The human globin as a model to study quality control of gene expression in the nucleus. Noélia Custódio
The human globin as a model to study quality control of gene expression in the nucleus Noélia Custódio Instituto de Medicina Molecular Faculdade de Medicina Universidade de Lisboa Cell Biology Unit 13
Complete all warm up questions Focus on operon functioning we will be creating operon models on Monday
Complete all warm up questions Focus on operon functioning we will be creating operon models on Monday 1. What is the Central Dogma? 2. How does prokaryotic DNA compare to eukaryotic DNA? 3. How is DNA
RNA polymerase II phosphorylation: uncoupling from GAL4-VP16 directed open complex formation and transcription in a reconstituted system
4958-496 Nucleic Acids Research, 1994, Vol., No. 3 RNA polymerase II phosphorylation: uncoupling from GAL4-VP16 directed open complex formation and transcription in a reconstituted system Ying Jiang and
16 The Cell Cycle. Chapter Outline The Eukaryotic Cell Cycle Regulators of Cell Cycle Progression The Events of M Phase Meiosis and Fertilization
The Cell Cycle 16 The Cell Cycle Chapter Outline The Eukaryotic Cell Cycle Regulators of Cell Cycle Progression The Events of M Phase Meiosis and Fertilization Introduction Self-reproduction is perhaps
15.2 Prokaryotic Transcription *
OpenStax-CNX module: m52697 1 15.2 Prokaryotic Transcription * Shannon McDermott Based on Prokaryotic Transcription by OpenStax This work is produced by OpenStax-CNX and licensed under the Creative Commons
Initiation of translation in eukaryotic cells:connecting the head and tail
Initiation of translation in eukaryotic cells:connecting the head and tail GCCRCCAUGG 1: Multiple initiation factors with distinct biochemical roles (linking, tethering, recruiting, and scanning) 2: 5
Lecture 10: Cyclins, cyclin kinases and cell division
Chem*3560 Lecture 10: Cyclins, cyclin kinases and cell division The eukaryotic cell cycle Actively growing mammalian cells divide roughly every 24 hours, and follow a precise sequence of events know as
Characterization of Prokaryotic and Eukaryotic Promoters Using Hidden Markov Models
From: ISMB-96 Proceedings. Copyright 1996, AAAI (www.aaai.org). All rights reserved. Characterization of Prokaryotic and Eukaryotic Promoters Using Hidden Markov Models Anders Gorm Pedersen *, Pierre Baldi
Introduction. Gene expression is the combined process of :
1 To know and explain: Regulation of Bacterial Gene Expression Constitutive ( house keeping) vs. Controllable genes OPERON structure and its role in gene regulation Regulation of Eukaryotic Gene Expression
UNIT 6 PART 3 *REGULATION USING OPERONS* Hillis Textbook, CH 11
UNIT 6 PART 3 *REGULATION USING OPERONS* Hillis Textbook, CH 11 REVIEW: Signals that Start and Stop Transcription and Translation BUT, HOW DO CELLS CONTROL WHICH GENES ARE EXPRESSED AND WHEN? First of
Gene Control Mechanisms at Transcription and Translation Levels
Gene Control Mechanisms at Transcription and Translation Levels Dr. M. Vijayalakshmi School of Chemical and Biotechnology SASTRA University Joint Initiative of IITs and IISc Funded by MHRD Page 1 of 9
CONSERVED STRUCTURE-FUNCTION RELATIONSHIPS IN THE MEDIATOR COMPLEX
From the Department of Laboratory Medicine Karolinska Institutet, Stockholm, Sweden CONSERVED STRUCTURE-FUNCTION RELATIONSHIPS IN THE MEDIATOR COMPLEX Tomas Linder Stockholm 2007 Published and printed
TAFs revisited: more data reveal new twists and confirm old ideas
Gene 242 (2000) 1 13 www.elsevier.com/locate/gene Review TAFs revisited: more data reveal new twists and confirm old ideas Shane R. Albright, Robert Tjian * Howard Hughes Medical Institute, Department
BME 5742 Biosystems Modeling and Control
BME 5742 Biosystems Modeling and Control Lecture 24 Unregulated Gene Expression Model Dr. Zvi Roth (FAU) 1 The genetic material inside a cell, encoded in its DNA, governs the response of a cell to various
Chapters 12&13 Notes: DNA, RNA & Protein Synthesis
Chapters 12&13 Notes: DNA, RNA & Protein Synthesis Name Period Words to Know: nucleotides, DNA, complementary base pairing, replication, genes, proteins, mrna, rrna, trna, transcription, translation, codon,
13.4 Gene Regulation and Expression
13.4 Gene Regulation and Expression Lesson Objectives Describe gene regulation in prokaryotes. Explain how most eukaryotic genes are regulated. Relate gene regulation to development in multicellular organisms.
Name: SBI 4U. Gene Expression Quiz. Overall Expectation:
Gene Expression Quiz Overall Expectation: - Demonstrate an understanding of concepts related to molecular genetics, and how genetic modification is applied in industry and agriculture Specific Expectation(s):
Deciphering regulatory networks by promoter sequence analysis
Bioinformatics Workshop 2009 Interpreting Gene Lists from -omics Studies Deciphering regulatory networks by promoter sequence analysis Elodie Portales-Casamar University of British Columbia www.cisreg.ca
Genetics 304 Lecture 6
Genetics 304 Lecture 6 00/01/27 Assigned Readings Busby, S. and R.H. Ebright (1994). Promoter structure, promoter recognition, and transcription activation in prokaryotes. Cell 79:743-746. Reed, W.L. and
Supplementary Figures
Supplementary Figures Supplementary Figure 1. Purification of yeast CKM. (a) Silver-stained SDS-PAGE analysis of CKM purified through a TAP-tag engineered into the Cdk8 C-terminus. (b) Kinase activity
SUPPLEMENTARY INFORMATION In format provided by Cramer et al. (MARCH 2015)
Supplementary Table 1. Structures of initiation factors Structure type Subunit/ Complex Year Organism Method PDB/ePDB code TFIIA TFIIA - TBP - DNA 1996 S. cerevisiae X-ray 1YTF 2.5 TFIIA TFIIA - TBP -
Student Learning Outcomes: Nucleus distinguishes Eukaryotes from Prokaryotes
9 The Nucleus Student Learning Outcomes: Nucleus distinguishes Eukaryotes from Prokaryotes Explain general structures of Nuclear Envelope, Nuclear Lamina, Nuclear Pore Complex Explain movement of proteins
16 CONTROL OF GENE EXPRESSION
16 CONTROL OF GENE EXPRESSION Chapter Outline 16.1 REGULATION OF GENE EXPRESSION IN PROKARYOTES The operon is the unit of transcription in prokaryotes The lac operon for lactose metabolism is transcribed
Plant Molecular and Cellular Biology Lecture 8: Mechanisms of Cell Cycle Control and DNA Synthesis Gary Peter
Plant Molecular and Cellular Biology Lecture 8: Mechanisms of Cell Cycle Control and DNA Synthesis Gary Peter 9/10/2008 1 Learning Objectives Explain why a cell cycle was selected for during evolution
Computational Cell Biology Lecture 4
Computational Cell Biology Lecture 4 Case Study: Basic Modeling in Gene Expression Yang Cao Department of Computer Science DNA Structure and Base Pair Gene Expression Gene is just a small part of DNA.
Molecular communication between androgen receptor and general transcription machinery
Journal of Steroid Biochemistry & Molecular Biology 84 (2003) 41 49 Molecular communication between androgen receptor and general transcription machinery Dong Kun Lee, Chawnshang Chang George Whipple Laboratory
GENE ACTIVITY Gene structure Transcription Transcript processing mrna transport mrna stability Translation Posttranslational modifications
1 GENE ACTIVITY Gene structure Transcription Transcript processing mrna transport mrna stability Translation Posttranslational modifications 2 DNA Promoter Gene A Gene B Termination Signal Transcription
Translation Part 2 of Protein Synthesis
Translation Part 2 of Protein Synthesis IN: How is transcription like making a jello mold? (be specific) What process does this diagram represent? A. Mutation B. Replication C.Transcription D.Translation
+ regulation. ribosomes
central dogma + regulation rpl DNA tsx rrna trna mrna ribosomes tsl ribosomal proteins structural proteins transporters enzymes srna regulators RNAp DNAp tsx initiation control by transcription factors
HHS Public Access Author manuscript Molecules. Author manuscript; available in PMC 2015 March 05.
Cross-Talk of Phosphorylation and Prolyl Isomerization of the C- terminal Domain of RNA Polymerase II S. D. Yogesha 1,, Joshua E. Mayfield 1,, and Yan Zhang 1,2,* S. D. Yogesha: yogeshasd@austin.utexas.edu;
REVIEW SESSION. Wednesday, September 15 5:30 PM SHANTZ 242 E
REVIEW SESSION Wednesday, September 15 5:30 PM SHANTZ 242 E Gene Regulation Gene Regulation Gene expression can be turned on, turned off, turned up or turned down! For example, as test time approaches,
Eukaryotic vs. Prokaryotic genes
BIO 5099: Molecular Biology for Computer Scientists (et al) Lecture 18: Eukaryotic genes http://compbio.uchsc.edu/hunter/bio5099 Larry.Hunter@uchsc.edu Eukaryotic vs. Prokaryotic genes Like in prokaryotes,
Co-ordination occurs in multiple layers Intracellular regulation: self-regulation Intercellular regulation: coordinated cell signalling e.g.
Gene Expression- Overview Differentiating cells Achieved through changes in gene expression All cells contain the same whole genome A typical differentiated cell only expresses ~50% of its total gene Overview
Gene regulation I Biochemistry 302. Bob Kelm February 25, 2005
Gene regulation I Biochemistry 302 Bob Kelm February 25, 2005 Principles of gene regulation (cellular versus molecular level) Extracellular signals Chemical (e.g. hormones, growth factors) Environmental
Lecture 13: PROTEIN SYNTHESIS II- TRANSLATION
http://smtom.lecture.ub.ac.id/ Password: https://syukur16tom.wordpress.com/ Password: Lecture 13: PROTEIN SYNTHESIS II- TRANSLATION http://hyperphysics.phy-astr.gsu.edu/hbase/organic/imgorg/translation2.gif
Molecular Biology of the Cell
Alberts Johnson Lewis Morgan Raff Roberts Walter Molecular Biology of the Cell Sixth Edition Chapter 6 (pp. 333-368) How Cells Read the Genome: From DNA to Protein Copyright Garland Science 2015 Genetic
Eukaryotic mrnas are modified at the 5 -end by the addition
Functional interactions of RNA-capping enzyme with factors that positively and negatively regulate promoter escape by RNA polymerase II Subhrangsu S. Mandal*, Chun Chu, Tadashi Wada, Hiroshi Handa, Aaron
Regulation and signaling. Overview. Control of gene expression. Cells need to regulate the amounts of different proteins they express, depending on
Regulation and signaling Overview Cells need to regulate the amounts of different proteins they express, depending on cell development (skin vs liver cell) cell stage environmental conditions (food, temperature,
THÈSE présentée par :
UNIVERSITÉ DE STRASBOURG ÉCOLE DOCTORALE des Sciences de la Vie et de la Sante IGBMC - CNRS UMR 7104 - Inserm U 964 THÈSE présentée par : Amita SINGH soutenue le : 29 Septembre 2014 pour obtenir le grade
On a roll for new TRF targets
On a roll for new TRF targets Jaime H. Reina and Nouria Hernandez Genes Dev. 2007 21: 2855-2860 Access the most recent version at doi:10.1101/gad.1623207 References Open Access Email alerting service This
Lesson Overview. Gene Regulation and Expression. Lesson Overview Gene Regulation and Expression
13.4 Gene Regulation and Expression THINK ABOUT IT Think of a library filled with how-to books. Would you ever need to use all of those books at the same time? Of course not. Now picture a tiny bacterium
Functional Association of Gdown1 with RNA Polymerase II Poised on Human Genes
Molecular Cell Article Functional Association of Gdown1 with RNA Polymerase II Poised on Human Genes Bo Cheng, 1,6 Tiandao Li, 2,6 Peter B. Rahl, 3 Todd E. Adamson, 2 Nicholas B. Loudas, 2 Jiannan Guo,
CS-E5880 Modeling biological networks Gene regulatory networks
CS-E5880 Modeling biological networks Gene regulatory networks Jukka Intosalmi (based on slides by Harri Lähdesmäki) Department of Computer Science Aalto University January 12, 2018 Outline Modeling gene