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AP Biology Chapters 4-7 Flashcards

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7269730283organic chemistrystudy of carbon compounds0
7269730284hydrocarbons- organic molecules only consisting of carbon and hydrogen - hydrocarbon chains are hydrophobic due to their non-polar CH bonds - release energy when broken down1
7269844674isomerscompounds with the same molecular formula but different structural arrangements and properties2
7269847005cistrans isomerssame sequence of covalently bonded atoms but overall differ in structure due to inflexibility of double bonds - cis isomer has same atoms attached to same carbons on one side of double bond - trans has atoms on opposite sides of double bond3
7269857536enantiomersleft and right handed versions of a molecule and can differ greatly in biological activity - ex: pharmacy - 2 enantiomers of a drug may not be equally effective (ex: crank vs. nasal inhaler) (mirrored versions of a molecule)4
7269864316functional groupsmay affect molecular function by being directly involved in chemical reactions - hydroxyl, carbonyl, carboxyl, amino, sulfhydryl, phosphate, methyl5
7269873639what do the functional groups hydroxyl, carbonyl, carboxyl, amino, sulfhydryl, phosphate all have in common?they are all hydrophilic, functional, and increase solubility of organic compounds in water6
7269876936what is different between hydroxyl, carbonyl, carboxyl, amino, sulfhydryl, phosphate functional groups and methyl?methyl isn't reactive7
7269877007hydroxyl group-OH name: alochols (ex: ethanol) is polar because electrons spend more time near electronegative oxygen atom form hydrogen bonds with water helping dissolve organic compounds like sugars8
7269884782carbonylname: ketones (in cytoskeleton), aldehydes (at end of C skeleton) ex: ketones - acetone ex: aldehydes - propanol can be structural isomers with different properties found in sugars. give rise to ketoses adn aldoses9
7269892679carboxylname: carbolxyc acids ex: acetic acid acts as an acid - donates H+ becauses the covalent bond between O and H is so polar10
7269900300aminoname: amines ex: glycine compounds with both amino and carboxyl group are amino acids acts as a base. picks up H+ from surrounding solution11
7269903633sulfahydrylname: thiols ex: cysteine- sulfur containing amino acid two groups react forming covalent bond. stabilizes protein structure (tertiary) cross linking in hair proteins maintains curls/straight hair12
7269909165phosphatename: organic phosphates ex: glycerol phosphate-phospholipids contributes negative charge when at end of molecules molecules with these groups have the potential to interact with water, releasing energy13
7269914528methylname: methylated cmpds ex: methyl cytosine-component modified by methyl group affects expression of genes arrangement gives male and female sex hormones an affected shape and function14
7269921656ATPconsists of organic molecule adenosine to which 3 phosphates are attached when reacts with water, third phosphate splits off releasing energy15
7269925259macromoleculescarbs, proteins, nucleic acids, are huge16
7269925287polymerlong macromolecule with many similiar building blocks with covalent bonds17
7269927753monomersrepeating unit in polymers18
7269927754enzymesspecializes macromolecules that speed up chemical reactions19
7269930150dehydration synthesismonomers connected in reaction in which 2 molecules are covalently bonded with loss of water molecule when bond forms, each monomer contributes either a -OH or -H to water molecules catalyzed by enzymes endergonic - needs energy20
7269934581hydrolysis- dissasembly of polymers - bond broken by additional addition of water - H+ attaching to one monomer and OH to another - exergonic - release of energy21
7269936457carbohydratessugars and polymers of sugars22
7269937568monosacchariedsgeneral formula CH2O - number of these units form a sugar vary23
7269941105what kind of functional groups are in a sugara carbonyl and multiple hydroxyl groups24
7270250771disaccharideconsists of 2 monosaccharides joined by glycosidic linkage25
7270252913glycosidic linkagecovalent bond between 2 monosaccharides joined by dehydration reaction26
7270262106polysaccharidespolymers with thousands of monosaccharides joined by glycosidic linkages27
7270263991starch-what plants store -polymer of glucose monomers, with plastids that have chloroplasts -synthesizing starch enables the plant to stockpile surplus glucose -is stored energy -can be withdrawn through hydrolysis, breaking down into glucose monomers -simplest form is amylose, then amylopectin (complex) -has alpha linkages ( repeating monomers in the same direction )28
7270275750glycogen-what animals store -like amylopectin but more extensively branched - in muscle and liver cells -hydrolysis of glycogen releases glucose when the demand for sugar increases29
7270284425cellulose-tough outside wall that encloses plant cells - is unbranched - has beta glycosidic linkages -enzymes that digest starch by hydrolyzing alpha linkages can't do the same to cellulose because beta ones are a different shape. - some hydroxyls free to hydrogen bond with other hydroxyls to cellulose moleculse paralle to it -parallel cellulose held together by hydrogen bonds between hydroxyl groups attached to carbon - repeating units that are in opposite directions30
7270303659beta linkagesmonomers in alternating orientation (one upside down, the other right side up, etc) linkages in cellulose31
7270307135alpha linkagesall monomers are in the same orientation linkages in starch32
7279144204chitinstructural polysaccharide formed from glucose monomers - found in exoskeletons and fungi have nitrogen containing group33
7279159298Lipidsfats, pospholipids, steroids hydrophobic do NOT form polymers34
7279161018fatsfatty acids attached to the 3-carbon, alcohol, glycerol - are an excellent storage of molecules - twice the reserve of carbs35
7279163193fatty acidlong, hydrocarbon chain with carboxyl group at one end - non polar hydrocarbons make them hydrophobic36
7279169153triaglycerol3 fatty acids, each linked by an ester linkage- a bond between a hydroxyl and carboxyl37
7279172118ester linkagebond between hydroxyl and carboxyl38
7279176600unsaturated fatty acidsfatty acids with double bonds in their carbon chain - is liquid at room temperature -cis double bond makes a kink - prevents unsaturated fatty acids from packing and solidifying together - plants and fish fat - oils - liquid at room temperature39
7279183005saturated fatty acidsno double bonds animal fats solid at room temperature40
7279184699trans fatsmade in the process of hydrogenated vegetable oils unsaturated fats with trans double bond41
7279196152phospholipidsglycerol linked to 2 fatty acids and a negatively charged phosphate group - phosphate head is hydrophilic - fatty acid tail is hydrophobic (ideal for membranes)42
7279201204steroidsclass of lipids distinguished by 4 connecting carbon rings with various attached groups - components of cell membranes (cholesterol) - signaling molecules that travel through the body (Horemones)43
7279205389cholesterolcomponent in animal cell membranes - precursor for other steroids, including many hormones - help maintain fluidity in the cell membrane44
7279210426catalystsenzymes (proteins) that speed up reactions45
7279210427polypeptidepolymer of amino acid46
7279211659proteinfunctional molecule of one or more polypeptides, each folded in 3D shape47
7279216743amino acids- composed of alpha carbon bonded to a hydrogen atom, carboxyl group, amino group, variable side chain called R group - R group refers to unique physical and chemical properties - side chains may either be polar or charged and hydrophilic, or nonpolar and hydrophobic - amino and carboxyl usually ionized48
7279222599examples of proteinsenzymes structural storage transport hormones receptor proteins motor proteins defensive proteins49
7279227404peptide bondbond linking carboxyl group of one amino acid with an amino acid of another - through dehydration reaction50
7279230463N-terminusamino end of polypeptide51
7279231621C-terminuscarboxyl end of polypeptide52
7279233944protein structure and functionamino acid sequence determines 3D shape - globular - sphere - fibrous - long fibers53
7279238707what does the functionality of a protein depend on?ability of the protein to recognize and bind to other molecules depends on molecular order also depends on physical and chemical enviornment54
7279243049denaturationprotein loses native shape weak chemical bonds and interactions destroyed ex: when it moves from an aqueous to a nonpolar solvent .......55
7279247151chaperoninsprotein molecules assist in folding of proteins keep new polypeptide segregated from bad influences in cytoplasmic environemnt from e. coli56
7279250711xray crystallographydetermines 3D structure of a protein57
7279252442geneamino acid sequence of a polypeptide programmed by a discrete unit of inheritance58
7279256431nucleic acidpolymers made of monomers called nucleotides59
7279257828deoxyribonucleic acidenable organisms to reproduce their complex components through each generation60
7279262593polynucleotidesnucleic acids make up polymers61
7279264801nucleotidemade up of nitrogenous base, 5 carbon sugar (pentose), one or more phosphate groups62
7279266392pyrimidineone six membered ring of carbon and nitrogen atoms cytosine and thymine (remember: both contain a y in the name)63
7279269306purineslarger, six membered ring fused to a five membered ring adenine and guanine64
7279275832what are the different types of nitrogenous bases and who do they pair withcytosine and guanine pair thymine and adenine pair65
7279276984deoxyribose and ribose- deoxyribose lacks an oxygen atom on the second carbon in the ring - second carbon is 2' - fifth carbon (sticks up from ring) is 5'66
7279531842how to make a nucleotideattach a phosphate group to the 5' carbon of the sugar which equals a nucleoside monophosphate = nucleotide67
7279534050phosphodiester linkagelinkage between the phosphate group and sugars68
7279537992double helix2 strands69
7279537993antiparallel2 phosphate-sugar backbones rune in opposite 5' to 3' direction70
7279541101complimentaryeach side of DNA is predictable71
7279542540primary structurelinked series of amino acids with a unique sequence - determined by inherited genetic info - LINEAR chain - dictates other structures, due to the back bone and variable side chains of the amino acids72
7279545417secondary structureregions stabilized by hydrogen bonds between atoms of polypeptide backbone - coils and folds of peptide chain due to the hydrogen bonds O atoms have partial (-) charge and H+ on Nitrogens have partial (+) charge, causing hydrogen bonds to form73
7279553434what are the two types of secondary structuresalpha helix beta pleated sheet74
7279554488alpha helixform of secondary structure - delicate coil held by hydrogen bonding on every 4th amino acid75
7279557929beta pleated sheet2+ strands of polypeptide chains side by side connected by hydrogen bonds between the 2 parallel peptide backbones76
7279565661tertiary structure3D shape stabilized by interactions of the side chains (R groups)77
7279569448hydrophobic interactioninteraction between amino acids with hydrophobic (nonpolar) side chains usually end up in clusters at core of protein. hydrophobic interaction caused by explosion of nonpolar substances by H20 molecules - once nonpolar amino acids are close to gether, van der waals hold them together - hydrogen bonds between polar side chains and ionic bonds help hold them together and stabilize the tertiary structure78
7279576950disulfide bridgescovalent bonds from where 2 cytosine monomers, that have sulfhydryl groups on the side chain, are brought close together by folding of side chain79
7279582075quaternary structureoverall protein structure that results from aggregation of polypeptide subunits - association of multiple polypeptides forming a functional protein80
7279585029light microscopevisible light is passed through the specimen and then through glass lenses. bend light so specimin is magnitized (LIVE specimins)81
7279587940magnificationratio of objects size to true size of real image82
7279588696resolutionmeasure of clairty of image83
7279588697contrastdifferences in parts of sample84
7279589502electron microscopefocuses bam of electrons through specimines. study organelles better KILLS live specimines85
7279591123scanning electron microscopeused for detail of topography - scans surface of sample86
7279592913transmission microscopestudy the internal structure of cells87
7279594145cell fractionationtakes cells apart and separates major organelles and other subcellular structures from one another - centrifuge spins test tube. causes cell components to fall to bottom - allows researchers to prepare specific cell components in bulk and identify functions88
7279603645cytosoljelly fluid organelles are in89
7279604591eukaryotic cellsDNA in nucleus that has a double membrane90
7279605112prokaryoticno nucleus - DNA in nucleoid91
7279606159nucleoidnot membrane bound place where DNA is92
7279606786cytoplasmbetween nucleus and plasma membrane93
7279607269plasma membraneselective barrier allowing passage of oxygen, nutrients, waste - smaller objects have greater ratio of surface area to volume - necessary to exchange things across the barrier94
7279609775nucleuscontains most of genes95
7279610397nuclear envelopeencloses nucleus. double membrane96
7279610398nuclear laminanetlike array of protein filaments that maintains the shape of nucleus by supporting nuclear envelope - nuclear lamina and filaments help organize genetic material97
7279619711chromosomesstructures carrying genetic info98
7279621574chromatincomplex of DNA and proteins in chromosome99
7279622884nucleolus-nondividing structure in nucleus -synthesis of rRNA -combines rRNA with protein to assemble ribosomal subunits, then passes through nuclear pores100
7279626562ribosomesmade of protein and ribosomal RNA - free - in cytosol - bound - attached to ER- make proteins in membranes, packed in organelles, or exported out of cell101
7279629243endomembrane systemnuclear envelope, endoplasmic reticulum, golgi, lysosomes, vesicles, vacuoles, plasma membrane membranes related through contact or vesicles102
7279630710vesiclesmembrane bound sacs that transfer membrane segments103
7279635942ER- membranous system continuous with nuclear envelope and enclosed in a network of interconnected tubules or compartments called cisternae104
7279636898Rough ERhas ribosomes attached proteins meant for secretion made by ribosomes then threaded through lumen of RER. most proteins are glycoproteins105
7279640812glycoproteinsproteins covalently bonded to small carbohydrates106
7279637501Smoother ERdoesn't have ribosomes attached enzymes involved in phospholipid and steroid synthesis, carbohydrate metabolism, detox of drugs and poisons, storage release of Ca ions during muscle contraction - alcohol makes liver increase production of smooth ER, leading to increased tolerance107
7279646582transport vesicleswhat proteins are transported in from RER108
7279653200Golgistack of flattened sacs - golgi products are processed and tagged as cisternae - products of ER are modified and stored and transported to other places109
7279658786what are the two faces of the golgi bodyCIS and TRANS110
7279659459what is the CIS face of the GolgiCIS - near ER - side of ER - entrance of stuff111
7279660104what is the TRANS face of the golgiTRANS - gives rise to vesicles pinching off and traveling to other sites carrying golgi products - of plant manufactures polysaccharides112
7279662518lysosomesmembrane enclosed sacs containing hydrolytic enzymes that digest macromoleucules - can provide acidic pH for these enzymes - recycles cells own macromolecules by fusing with damaged organelles113
7279665425autophagywhen lysosomes fuse with damaged organelles to recycle them114
7279667637vacuoleslarge vesicles115
7279669286phagocytosiswhen protists engulf particles how lysosomes can digest food vacuoles116
7279667638food vacuolesas a result of phagocytosis stores food117
7279671543contractile vacuolespump excess water out of fress water protists118
7279672259what can vacuoles in plant cells docan store organic and inorganic ions, contain dangerous metabolic byproducts, protect plant from predators119
7279673734central vacuolefound in mature plant cells contain solution called cell sap120
7279674365mitochondriawhere cellular respiration happens to make ATP121
7279678772cisternaefolds of membrane of mitochondria create a large surface area enclose mitochondria matrix122
7279675545endosymbiont theorymitochondria was prokaryote - mitochondria has 2 membranes, phospholipid bilayer with special proteins, own DNA, ribosomes123
7279677673chloroplastswhere photosynthesis happens makes sugars from CO2, H2) and solar energy have 2 membranes124
7279681158thylakoidsintermembrane system of connected sacs in chloroplasts125
7279681807granastacks of thylakoids126
7279681808stromafluid fillid around the thylakoids contain chloroplast DNA, ribosomes, enzymes127
7279683194plastidsplant organelle (chloroplasts) include amyloplasts which stores starch, chromoplasts which contain pigments128
7279684383amyloplaststype of plastid that stores starch129
7279684795peroxisomesspecialized metabolic compartment bound by a membrane contain enzymes that remove hydrogen atoms from substrates and transfer them to oxygen to make hydrogen peroxide (H202)130
7279687787function of peroxisomes- break down fatty acids for energy, detox alochol and poisons - has enzymes that converts hydrogen peroxide to water - glyoxysomes131
7279690591glyoxysomesSpecialized peroxisomes found in the fat storing tissues of plant seeds - convert fatty acids to sugars132
7279701034cytoskeletonnetwork of protein fibers give mechanical support and function in cell mobility interacts with motor proteins to produce cellular movements133
7279722788microtubules- hollow rods constructed of colums of globular proteins called tublins. thickest . ex: separate chromosomes during cell division - are tracks taht roganelles move along with aid of motor proteins - grow out of centrosome134
7279765721centrosomeregion near nucleus called microtuble organizing center135
7279766159centriolespart of centrosome pair of centrolies, each made of 9 sets of triplet microtubules in a ring, is associated with centrosome and replicated before cell divison136
7279770794cilia and flagellalocomoter extensions both composed of 2 single microtubules surrounded by a ring of 9 doublets of microtubules enclosed in extension of plasma membrane137
7279772029basal bodywith "9+0+ pattern of microtubule triplits, anchors a cilium or flagellum in cell.138
7279773225dyneinslarge motor proteins composed of several polypeptides -responsable for bending movement of organism - atp provides energy to allow dynein proteins to change shape to preform complex movements139
7279776644microfilamentsmallest solid rods build from actin is a twisted chain of actin subunits form a structural network when proteins bind to side of actin filament structural purpose is to bear tension (pull force) and support the shape of the cell140
7279776645actinglobular protein. units of microfilament141
7279779681cortexouter cytoplasmic layer of cell microfilament structure gives the cortex its gel consistency - microfilaments increase surface area of intestinal cells - microfilaments on length of muscle cell with myosin142
7279782789myosinthicker filaments made of a protein acts as a motor protein- walks along actin filaments contraction of a muscle cell is bc of actin and myosin filaments sliding past another, shortening of cell143
7279785095cytoplasmic streaminginvolves both actin myosin interactions and sol-gel conversions - circular flow of cytoplasm in cells144
7279786154intermediate filamentssmaller than microtubules, bigger than microfillaments maintain cell shape nucleus security held by web of intermediate fillaments nuclear lamina made of intermediate filaments -permanent network of cell145
7279788370cell wallcomposed of microfibrils of cellulose embedded in a matrix of polysaccharides and protein146
7279789505microfibrilsmade of polysaccharide cellulose synthesized by cellulose synthase147
7279789504primary cell wallyoung plant thin and flexible microtubules in cell cortex guide path of cellulose synthase, determining pattern of cellulose fibril deposition and thus direction of cell expansion148
7279792169middle lamellabetween primary walls of adjacent cells - thin layer of polysaccharides (PECTIN)149
7279793134secondary wallbetween plasma membran and primary cell wall150
7279793889extracellular matrixmade of glycoproteins and other carbohydrae containing molecules151
7279794344glycoproteinsare proteins covalently bonded with carbs, usually in sort chain fo sugars152
7279795452collagenforms strong fibers embedded in a network of proteoglycan complexes (outside of cell)153
7279796890proteoglycansconsist of small core protein with many carbohydrate chains all attached to long polysaccharides154
7279797498fibronectinshow cells attach to ECM155
7279797513integrinsspan plasma membrane. what fibronectins bind to bind to microfilaments bind to micro filaments via other proteins of cytoskeleton156
7279807511plasmodesmatachannels in plant cell walls which plasma membranes connect linking plant cells into a living continuoum157
7279808926tight junctionproteins hold adjacent membranes tightly together creating impermeable seal across layer of epithelial cells - prevent leakage158
7279811104desmosomesreinforced by intermediate filaments. rivet cells into strong sheets (in muscle)159
7279813304gap junctioncytoplasmic connections allow for exchange of small molecules and ions between cells to protein lined pores160
7279815897fluid mosaic modelbiological membranes consist of various proteins that are attached to or embedded in bylayer of phospholipids161
7279817699amphipathicboth hydrophilic and phdrophobic162
7279819242parts of plasma membrane- membranes held together by weak hydrophobic interactions that allow the lipid and some of the proteins to drift laterally - soe membrane proteins held by cytoskeleton or ECM - others directed in movements - phospholipids with unsaturated carbon tails maintain membrane fluidity at a lower temp163
7279822468cholesterolrestricts movement of phospholipids reducing fluidity at warmer temps and enhancing fluidity at lower temps164
7279823709integral proteinsextended though membrane with 2 hydrophilic ends and a hydrophobic midsection made of one or more alpha helical structures of nonpolar amino acids165
7279825228peripheral proteinsattached to surface of membrane - attachments of membrane proteins to cytoskeleton and fibers of ecm provide support for membrane166
7279826800glycolipidscacarbs covalently bonded to lipids167
7279828129what do glycolipids and glycoproteins have to do with the plasma membranethe diversity and location of these molecules enable membrane carbs to funciton as markers that distinguish one cell to another168
7279828965channel proteinshave hydrophilic channel to allow passage of polar molecules169
7279829518transport proteinshelp move ions and polar molecules across membrane170
7279829820aquaporinsallows passage of water through membranes171
7279829821diffusionmovement of substance down conentration gradient due to random thermal motion172
7279830743passive transportno energy expenditure173
7279830744osmosisdiffusion of free water across permeable membrane. diffuses down concentration gradient174
7279831536tonicityclustering of water around solute adn free water particles tendency of a surrounding solution to gain or lose water175
7279832515isotonicneigher gain or lose water176
7279833194hypertonicmore non-penetrating solutes - water will flow out of cell when it is in a hypertonic environment, causing it to shrivel177
7279835490hypotonicless solutes outside of cell than inside, cause water to go into cell and burst178
7279836533turgidfirm, healthy state for plant cells turgor pressure water moving in cell causes cell to swell against cell wall179
7279837302flaccidplant clels in isotonic surrounding (limp)180
7279837761plasmolysisplasma membrane pulls away from cell wall as water exists and cell shrivels, when in hypertonic solution181
7279840569facilitated diffusiondiffusion of polar molecules with the aid of transport proteins182
7279841292ion channel and gated channelsopen and close in response to electrical stimuli183
7279841937active transportrequires energy to transport ATP phosphate group may be transferred to carrier protein, making it change shape and translocate from bound solute to membrane184
7279843235sodium potassium ion pumpexchanges Na and K across animal cell membranes, creating a high concentration of K ions and a low concentration of sodium ions in cell185
7279844527membrane potentialvoltage across a membrane - favors transport of cations into cell because inside is negative and outside is positive186
7279846291electrochemical gradientcombination of forces acting on ion - chemical - conecntration gradient - electrical - effect of membrane potential187
7279847272proton pumptransports H out of cell and generates voltage across membrane in plants, fungi and bacteria188
7279849724cotransportmechanism through which the active transport of a solute is indirectly driven by an ATP powered pump that transports another substance down its gradient - as the actively transported substance diffuses back down its concentration gradient through cotransporter, the solute is carried against concentration gradient across membrane189
7279852445exocytosiscell secretes large molecules by the fusion of vesicles with the plasma membrane190
7279852999phagocytosisform of endocytosis -pseudopodia wrap around a food particle adn engulf it, creating a vacuole - fuses with lysosome191
7279854178pinocytosisdroplets of extracelluar fluid taken into the cell in small vesicles192
7279854602receptor mediated endocytosisenables a cell to aquire specific substances from extracellular fluid193
7279855261ligandsmolecules that bind to receptor cites - attach receptor proteins (usually coated in clustered pits on cell surface) and are carried into cell when vesicle forms194

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