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Questions and Answers
2023 Latest Update.
Central Dogma - Answer DNA โ RNA โ Protein Purines
- which bases?
- how many rings? - Answer Pyrimidines
- which bases?
- how many rings? - Answer Remember: "Pyrimidine" has a "y" in it; so does "cytosine" and "thymine." Phosphodiester Bond - Answer Joins one nucleotide to the next; between the 3rd C of one ribose and the 5th C of the other to create the sugar-phosphate backbone
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2023 Latest Update.
Directionality of DNA (convention) - Answer 5' โ 3' (but strands are antiparallel, so other strand is opposite) 3' of DNA attached to ... - Answer OH 5' of DNA attached to ... - Answer Phosphate group DNA composition - Answer 1. Phosphate group
- 5-Carbon sugar
- Nitrogenous base (A, T, G, C) Which nitrogenous bases form 2 hydrogen bonds? - Answer A, T
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2023 Latest Update.
Which nitrogenous bases form 3 hydrogen bonds? - Answer G, C Replisome - Answer Proteins that govern the replication process Origin of replication - Answer Where replication begins. Prokaryotes have 1; eukaryotes have many on each chromosome DNA synthesis: direction of synthesis - Answer 5' โ 3' (the DNA is read 3' โ 5') Steps of replication (5) - Answer 1. Helicase unzips double helix
- RNA polymerase builds a primer
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2023 Latest Update.
- DNA polymerase adds leading/lagging strands
- Primers removed
- Okazaki fragments joined RNA vs. DNA: differences - Answer RNA:
- C2 is oxygenated (has OH)
- Single stranded
- Uses uracil instead of thymine
- Can move through nuclear pores out of nucleus DNA
- C2 is deoxygenaged (has H)
- Double stranded (double helix)
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2023 Latest Update.
- Uses thymine
- Stuck in the nucleus Transcription - Answer Process of making RNA (rRNA, mRNA, tRNA) Promoter - Answer Required for transcription. Sequence of DNA nucleotides that signals beginning point for transcription. Primer - Answer Required for DNA replication Consensus sequence - Answer Most common promoter sequences; closer the DNA nucleotides are to the consensus sequence, the more tightly the RNA polymerase can bind, which leads to more frequent transcription (and vice versa)
Questions and Answers
2023 Latest Update.
RNA polymerase - Answer Synthesizes RNA in transcription Transcription: Steps - Answer 1. Initiation - transcription factors, transcription initiation complex (including RNA pol) finds promoter
- Elongation - Template/antisense DNA strand is read and complementary RNA synthesized in 5' โ 3' direction (same as DNA synthesis); DNA is read in 3' โ 5' (also same as DNA synthesis)
- Termination - temination sequence marks end, special proteins dissociate RNA pol from DNA Gene regulation - Answer Most occurs at transcription via repressors and activators, which bind near promoter and affect activity of RNA polymerase
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2023 Latest Update.
Operon - Answer Entire transcript in a prokaryote; includes multiple genes (polycistrionic). I.e., lac operon - operator, repressor, genes, promoter, etc. RNA post-transcriptional processing - Answer pre-mRNA altered in 3 ways:
- addition of nucleotides
- deletion of nucleotides
- modification of nitrogenous bases 5' cap - Answer Added to mRNA as an attachment site in protein synthesis and protection against degradation by exonucleases. Done with GTP.
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2023 Latest Update.
3' poly A tail - Answer Added to mRNA to protect from exonucleases. snRNPs - Answer Recognize introns and snip them out Intron - Answer Non-coding region of mRNA. Is removed by snRNPs (and spliceosome complexes) and then degraded in nucleus. Exon - Answer Coding region of mRNA. Remains after activity of snRNPs and spliceosome. Then exits the nucleus for translation. DNA denaturation: conditions, effects - Answer Conditions:
- Salt solution
- High pH (basic) solution
- High temperature
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2023 Latest Update.
Effects:
- Double helix separates because hydrogen bonds are disrupted
- DNA with more G-C pairs (G-C forms 3 H bonds, while A-T has only 2) has a greater Tm, so takes more energy to melt Restriction Enzymes - Answer - method bacteria use to protect themselves from viruses is to cut viral DNA w/these (bacterial DNA is methylated, so differentiated)
- can form recombinant DNA (artificially) using these Cloning DNA - Answer Recombinant DNA can be placed in bacteria using a vector (plasmid or virus), then grown. Screened by including an antibiotic resistance gene and a lacZ gene to find which colonies actually took up the vector.
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2023 Latest Update.
cDNA - Answer Complementary DNA. Used often in cloning because has no introns (and therefore is active). Produced in RT PCR from mRNA. Southern Blot - Answer Identifies specific sequences of DNA through nucleic acid hybridization. Northern Blot - Answer Identifies specific sequences of RNA through nucleic acid hybridization. Western Blot - Answer Detects protein levels with antibodies. Genetic code: 3 major features - Answer 1. Degenerative: More than one codon for each amino acid
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2023 Latest Update.
- Unambiguous: Each codon encodes for only ONE amino acid
- Universality: nearly every living organism uses same code Codon - Answer Three consecutive nucleotides on mRNA Stop codons - Answer UAA, UAG, UGA Start codon (and methoinine) - Answer AUG Convention for writing RNA - Answer 5' โ 3' Translation - Answer Process of protein synthesis. Three steps: Initiation, elongation, termination.
Questions and Answers
2023 Latest Update.
Translation (initiation) - Answer mRNA has left nucleus via nuclear pores, and is now in cytosol; initiation factors (proteins) help the 5' end of mRNA attach to the small ribosome subunit. tRNA with 5'-CAU-3' anticodon gets methionine and goes into P site. This together is called the "initiation complex." Ribosome
- prokaryote
- eukaryote - Answer In both prok and euk, made of rRNA and protein; small and large subunits.
- prokaryote: 30S and 50S subunits (70S total)
- eukaryote: 40S and 60S subunits (80S total); made in nucleolus; exported separately to the cytoplasm (prok. do not have nucleolus, but synthesis process is similar)
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2023 Latest Update.
Translation (elongation) - Answer tRNA with corresponding amino acid attaches to the A site (2 GTPs expended). Translocation occurs: ribosome shifts 3 nucleotide units along mRNA toward 3' end (1 more GTP expended), new tRNA now at P site. tRNA previously in P site moves to E (exits). Repeats until stop codon reaches P site. A site - Answer Aminoacyl site of translation
- site where tRNA bearing amino acid first attaches to ribosome P site - Answer Peptidyl site of translation
- site where first tRNA bearing methionine goes
- site where amino acid chain is elongated
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2023 Latest Update.
E site - Answer Exit site of translation
- tRNA (now w/o amino acid) leaves the ribosomal complex Translocation (translation)
- purpose
- energy expenditure - Answer Translocation is a step of elongation; the ribosome shifts 3 nucleotide units toward 3' end of mRNA so that the next codon is exposed. 3 GTPs are used in total. Termination (translation) - Answer Translation ends when a stop codon reaches the P site; release factor protein binds to stop codon and ribosom disassembles.
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2023 Latest Update.
Post-translational modifications of peptides - Answer - Other groups may be added to the peptide chain (sugars, lipids, phosphates)
- May be cleaved in one or more places Where does translation take place? - Answer Two possibilities:
- Free-floating ribosome in the cytosol
- Ribosome that attaches itself to the rough ER during translation and injects proteins into ER lumen How / why do some ribosomes attach to rough ER? - Answer A 20- amino acid sequence (signal peptide) near front of polypeptide is recognized by protein-RNA signal-recognition particle (SRP) that carries ribosome complex to a receptor protein on the ER.
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2023 Latest Update.
Gene mutation - Answer Alteration in the sequence of DNA in a single gene Chromosomal mutation - Answer The structure of a chromosome is changed Mutagens - Answer Chemical or physical agents that can cause mutations (induced) Point mutation - Answer A single base-pair of nucleotides in a double strand of DNA is changed Base-pair substitution mutation - Answer Type of point mutation. One base pair is replaced by another.
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2023 Latest Update.
Missense mutation - Answer Base-pair mutation that occurs in amino acid coding sequence of a gene. Does not always affect the a.a. or the protein:
- No change in protein function: neutral mutation
- amino acid is not changed: silent mutation Insertion / Deletion - Answer Another type of point mutation. May result in a frameshift mutation if occurs in multiples other than 3. Frameshift mutation - Answer Occurs when insertion / deletion occurs in multiples other than 3. Bases are then grouped incorrectly, leading to incorrect "reading." Usually results in nonfunctional proteins.
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2023 Latest Update.
Nonsense mutation - Answer Premature stop codon due to base-pair substitution, insertion, or deletion. VERY serious. Chromosomal deletion - Answer DNA fragment breaks off from a chromosome Chromosomal duplication - Answer DNA fragment breaks off one chromosome and attaches to its homologous chromosome Chromosomal translocation - Answer Segment of DNA is inserted into another chromosome Chromsomal inversion - Answer Orientation of a section of DNA on a chromosome is reversed
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2023 Latest Update.
Causes of translocation / inversion of chromosomes (possible) - Answer Transposition: transposons/transposable elements excise themselves and reinsert elsewhere. This is one way a somatic cell can alter genetic makeup w/o meiosis. Forward mutation - Answer Mutating an organism farther from its wild type state Backward mutation - Answer Mutating an organism back toward its wild type state (from a mutated state) Chromatin - Answer Coiled DNA/protein complex.
Questions and Answers
2023 Latest Update.
Histones - Answer Globular proteins around which DNA is wrapped to form chromatin. Nucleosome - Answer Eight histones + DNA What is the charge of histones? - Answer They are basic, and have a net positive charge at the normal pH of a cell. When is chromatin coiled/uncoiled? - Answer Coiled: nuclear division Uncoiled: transcription (euchromatin) Homologous chromosomes (homologues) - Answer Two chromosomes that encode for the same traits
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2023 Latest Update.
Cell life cycle: steps (diagram) - Answer Gโ, S, Gโ, M Cell life cycle: Interphase - Answer Gโ (first growth phase) S (synthesis) Gโ (second growth phase) Cell life cycle: Gโ (characteristics) - Answer - cell has just split
- new organelles, proteins produced = growth
- Gโ checkpoint: appropriate ratio of cytoplasm to DNA = cell enters S (division) phase; otherwise goes to Gโ
- normal longest stage of cycle
Questions and Answers
2023 Latest Update.
Cell life cycle: Gโ (characteristics) - Answer - nongrowing phase (NOT interphase)
- allows for differences in length of cell cycle; i.e., mature neurons permanently in Gโ Cell life cycle: S (characteristics) - Answer - cell's energy devoted to replicating DNA
- technically maintains same chromosome number, but now each chromosome has identical sister chromatid Cell life cycle: Gโ (characteristics) - Answer - cell prepares to divide
Questions and Answers
2023 Latest Update.
- Gโ checkpoint: when there is enough mitosis promoting factor (MPF), mitosis is triggered Mitosis: steps - Answer Prophase Metaphase Anaphase Telophase (Remember: PMAT) Prophase: characteristics (mitosis) - Answer - condensation of chromatin into chromosomes
- centrioles move to opposide ends of cells
- nucleolus and nucleus disappear
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2023 Latest Update.
- spindle apparatus forms Spindle apparatus - Answer - aster fibers (microtubules radiating from centrioles)
- kinetochore microtubules growing from centromeres of chromosomes
- spindle microtubules connecting centrioles Metaphase: characteristics (mitosis) - Answer Chromosomes align at the equator of the cell Anaphase: characteristics (mitosis) - Answer - sister chromatids split at centromeres and move to opposite ends of cells
- cytokinesis may start toward end of anaphase
Questions and Answers
2023 Latest Update.
Telophase: characteristics (mitosis) - Answer - nuclear membrane reforms
- nucleolus reforms
- chromosomes decondense
- cytokinesis continues Meiosis: definition - Answer Double nuclear division that produces four haploid (n) gametes from one (2n) cell. Which cells undergo meiosis?
- male
- female - Answer 1) male: spermatogonium (spermatogenesis)