Module 4

  1. Two major classes of sugar molecules are _______ (______) and _______ (_______).
    Aldose (aldehyde) and ketose (ketone)
  2. __________ is the simplest aldose sugar. The simplest ketose sugar is ________ and it is _______
    • Glyceraldehyde (aldotriose)
    • dihydroxyacetone (ketotriose)
    • achiral
  3. What do these colors signify? How many stereoisomers are possible?
    What is the caveat for long sugars?
    Image Upload 1
    Green represents the aldehyde functional group and the chiral carbons are in red

    There are four chiral stereocenters so 24 = 16

    Caveat: sugars that are five or more carbons in length are not linear in nature. Rather, they are cyclical
  4. Name the shortest aldose and ketose?
    How many stereoisomers does each form?
    Image Upload 2
  5. Cyclization reaction occurs between ______ and a(n) ______ (which carbons are involved?). This results in a ________.
    • aldehyde and an alcohol (C1-C5 reaction)
    • hemiacetal
  6. Right -OH groups in Fischer projections point ______ in ring form. Left -OH groups in Fischer projection, point _______ in the ring form.
    Draw the α and β haworth forms and state how many stereoisomers do the haworth forms have?
    • downward
    • upward
    • Image Upload 3
  7. How do you number rings in chair conformations
    Moving away from the ring oxygen starting with 1) the anomeric carbon
  8. The anomeric carbon is the _____ center of a sugar. How do you identify the anomeric carbon?
    What is unique about carbon #6 on D-glucose
    • reactive center 
    • The anomeric carbon will have a hydroxyl group or OH- relic bound to it and one carbon away from the embedded oxygen 
    • Carbon #6 is not part of the ring
  9. Draw the chair conformations of both glucose conformations and compare stabilities and steric clashes
    Image Upload 4
  10. Sugars can have isomers known as ______ (define) (essentially, they are __________).
    • epimers: differ at the positioning of the -OH group at one chiral carbon 
    • stereoisomers
  11. The formation of cyclic forms of mannose and galactose follows the same reaction mechanism as _______
    Draw the Fischer and Haworth diagrams of the epimers D-galactose and D-mannose. Compare the stereo isomeric count in both forms
    • Glucose
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  12. Biophysical method: The concept and illustrative as well as graphical example of ________. What is being observed in the graph? What do the arcs and their point of convergence mean?
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    • mutarotation
    • Graphical illustration of mutarotation occurring in an AQUEOUS solution You are observing a change in the optical rotation as the sugar interconverts to its other anomer
    • The downward arc from 112° to 52.7° represents decreasing degree of plane polarized light rotation

    The upward arc from 18.7° to 52.7° represents increasing degree of plane polarized light rotation 

    • Both converging on about 52.7°, a mixture of both α and β glucose so essentially, it opens up Fischer style
    • Image Upload 7
  13. What are the percentages of α and β glucose in the body?
    • 33 %  α glucose
    • 67 % β glucose because less steric clashes
  14. The cyclization of fructose is similar to that of _______.
    Glucose
  15. What is the cyclic version of D-Fructose called?
    α-D-Fructofuranose and β-D-Fructofuranose
  16. Draw both the Fischer projection of D-Fructose and the Haworth projections (There should be 3 drawings total). Also state the number of stereoisomers for each diagram
    Image Upload 8
  17. The cyclization of fructose involves ____ and the ___ ___ group and is an example of a ________ reaction (define)
    • C2 and C5-OH group
    • Hemiketal reaction
  18. Define Hemiketal reaction
    A reaction between an alcohol functional group and a ketone function group
  19. Define hemiacetal reaction
    alcohol reacts with an aldehyde
  20. Define oxidized
    • 1. To become chemically combined with oxygen
    • 2. Undergo a reaction in which electrons are lost to another species
  21. Define REDUCED
    • (1): To become chemically combined w/ hydrogen
    • (2): To undergo a reaction in which electrons are gained by one atom from another
  22. O.I.L.R.I.G
    Oxidation is Loss; Reduction is Gain [electrons]
  23. What is the Tollens Test is used for?
    Positive color?
    Negative color?
    • To determine whether a sugar is a reducing or non-reducing sugar
    • Positive = SILVER
    • Negative = Clear
  24. What is the Benedicts Test is used for?
    Positive color?
    Negative color?
    • To determine whether a sugar is a reducing or non-reducing sugar
    • Positive = RED
    • Negative = Blue
  25. 3 characteristics of REDUCING sugars
    • 1.  Free -OH on its anomeric carbon
    • 2. CAN mutarotate
    • 3. Positive Tollens' or Benedict's test result
    • 4. NOT a glycoside
  26. 4 characteristics of NON-REDUCING sugars
    • 1.  NO free anomeric -OH
    • 2. CANNOT mutarotate
    • 3. NEGATIVE Tollens' or Benedict's test result
    • 4. YES Glycoside
  27. Describe the 2 types of possible glycosidic linkages
    • (1) Covalent Bond between a sugar (monosaccharide) and another sugar (monosaccharide)
    • (2) Covalent bond between a sugar and an alkyl group
  28. The presence of a sugar glycoside is easiest to determine when?
    When there are two sugars with an anomeric-anomeric glycosidic linkage
  29. How do you determine the presence of a sugar glycoside when there are more than 2 sugars?
    look at the sequence in pairs, pay close attention to the last pair (pair on edge should be anomeric-anomeric)
  30. Anomeric carbons can take which 2 conformations?
    • 1.  α (axial)
    • 2. β (or equatorial)
  31. What are the two principal disaccharides state both coloquial and systematic names. Draw both (please note alpha/beta symbols will not be provided on the exam)
    1) Maltose aka α-D-glucopyranosyl (1→4) α-D-glucopyranose

    • 2) Lactose aka β-D-galactopyranosyl (1→4) α-D-glucopyranose)
    • Image Upload 9
  32. Maltose is a ______ sugar meaning it has a _____ _____ group on its anomeric carbon (blue circle). Glycosidic bond involves a _____ glycosidic linkage. How many stereoisomers does Maltose have (HAWORTH)
    • reducing sugar
    • free -OH group 
    • α1-4 glycosidic linkage (Does not ever change)
    • 210 = 1024 stereoisomers (10 total chiral centers; 5 on each sugar)
  33. How are disaccharides formed?
    2 hemiacetals reacting to form an acetal
  34. Lactose is a ______ sugar, it has a _____ _____ group on its anomeric carbon. What does its glycosidic bond consist of? How many stereoisomers does it have?
    • reducing sugar
    • free -OH group 
    • Its glycosidic bond involves ONE anomeric carbon, the β1-4 glycosidic linkage and a non-anomeric carbon
    • 210 = 1024 (10 total chiral centers; five on each sugar)
  35. Image Upload 10
    How many anomeric carbons are in an α-conformation?
    How many anomeric carbons are in a β-conformation?
    Determine the precise number of glycosidic linkages
    Will it mutarotate?
    • 2
    • 1
    • The black arrows
    • Yes there is a free anomeric carbon 
    • Advice: If you wish, you may use the last pair concept
  36. Image Upload 11
    Determine the glycosidic linkage
    Is this an example of a glycoside?
    Is this a reducing sugar?
    • Black arrows
    • Yes it is, the anomeric carbons have reacted with each other
    • No, because there are no free -OH groups on anomeric carbons. Both anomeric carbons are being used to create a glycosidic linkage
  37. Image Upload 12
    Determine the glycosidic linkage
    How many anomeric carbons are in the α conformation?
    How many anomeric carbons are in the β conformation
    • black arrows 1 = α1-2; 2 = α1-2; 3 = β1-4
    • 3 are in the α conformation
    • 1 is in the β conformation
  38. For the following Carbohydrate names, state:
    1) Building unit
    2) Types of glycosidic linkage(s) and branching 
    3) Function: energy storage or structural support
    4) Whether it is present in plants or animals
    Image Upload 13
    Image Upload 14
  39. Identify the main chain and branch points 
    Image Upload 15
    Glycogen
  40. How does amylopectin compare to glycogen with regard to main chain and branchpoint?
    amyloecptin (plants) shares almost exactly the same mainchain and branchpoint as glycogen
  41. How does amylose compare to glycogen with regard to main chain and branchpoint?
    amylose (plants) similar to glycogen in main chain but has no branching
  42. How does cellulose compare to glycogen with regard to main chain and branchpoint?
    Cellulose (plants) has a similar main chain to that of glycogen and amylopectin
  43. Eukaryotic N-linked glycosylation results in _______. Besides serving a
    purely ______ need, what is the OTHER functional significance of sugars
    in our bodies?
    • Glycoproteins
    • Energetic
    • In eukaryotic cells, through a process known as N-glycosylation, sugars are used to monitor the quality of protein folding in an organelle known as the endoplasmic reticulum (ER). Sugars can also eliminate improperly folded proteins in the ER.
  44. What is a GLYCOPROTEIN and where does it take place?
    A Glycoprotein is a protein that contains covalently linked sugars & it takes place in the Endoplasmic Reticulum
  45. What is a glycosylation motif? And which amino acid(s) does it target?
    • Glycosylation Motif: Short stretch of amino acid WITHIN a protein that is to be glycosylated.
    • ...NXS/T... (side chain of N gets glycosylated)
  46. What is the functional significance of N-linked glycosylation?
    Guides and monitors proteins through distinct stages of protein folding in the endoplasmic reticulum
  47. How do you calculate the probability of finding a glycosylation motif? What does that probability mean?
    • Just a probability calculation:
    • ...N(1)-X(2)-S/T(3)
    • Position 1 = asparagine, position 2 = any amino acid EXCEPT proline, position 3 = serine or threonine 

    • ∴ the probability of finding ONE glycosylation motif in a protein:
    • (1/20) * (19/20) * (2/20) * 100% = 0.475%

    It means that at random, there is LESS than half-percent chance of finding a glycosylation motif within ANY given protein
  48. 1) What is the probability of finding TWO glycosylation motifs?

    2) What is the probability of finding THREE glycosylation motifs?
    • 1) (0.475%) * (0.475%) = 0.226%
    • 2) (0.475%) * (0.475%) * (0.475%) = 0.107%
  49. Below you are provided with a partial sequence of a protein known as
    TRPM and a study investigating the potential glycosylation of this
    protein was reported in November 8, 2013 issue of The journal of
    Biological Chemistry. 



    Does this sequence contain a glycosylation motif?



    H3N+1...QEDMDVALMEHSNCSSEPGFWAHPPG...COO-1
    • Yes:
    • H3N+1...QEDMDVALMEHSNCSSEPGFWAHPPG...COO-1
  50. How many glucose, N-acetylglucosamine and mannose molecules are in an N-linked Glycan structure?
    Image Upload 16
    Image Upload 17
  51. A cell-biological perspective on the secretory pathway and connecting it with glycosylation and protein folding in the ER
    Image Upload 18
    Define or state the role of: Signal sequence, Sec61, SRP, SRP receptor.
    • Signal sequence: Hydrophobic sequence at front of secretory proteins
    • Sec61: protein channel that allows passing of nascent or newly formed polypeptides 
    • SRP: Signal recognition particle protein 
    • SRP receptor: receptor for binding SRP
  52. 3 characteristics of the signal peptide
    Image Upload 19
    • 1) ~20 residues long at the very N-terminus
    • 2) Very hydrophobic
    • 3) predominantly aliphatic residues (leucine and alanine)
  53. The figure displays N linked glycosylation and the degradation of glycosylated proteins (7-story)
    Image Upload 20
    • Proteins that enter the endoplasmic reticulum (ER) are often modified by the addition of a GlcNAc2-Man9-Glc3 glycan to the side chainnitrogen of Asn residues in the consensus Asn-X-Ser/Thr motif.
    • First, the translocon-associated oligosaccharlyl transferase (OST) complex co-translationally transfers GlcNAc2-Man9-Glc3 glycans from dolichol to substrate proteins
    • Next glucosidase-I and glucosidase-II sequentially remove two terminal glucoses, generating monoglucosylated substrates that are recognized by calnexin and calreticulin through their carbohydrate-binding globular domains (calreticulin is a soluble protein and is not shown). 
    • The interaction with calnexin and calreticulin facilitates folding.
    • ERP57, a protein disulphide isomerase homologue that is associated with the arm domain of calnexin and calreticulin, catalyses disulphide bond formation 
    • Following release from the calnexin-calreticulin cycle, the final glucose is trimmed by glucosidase-II. 
    • If glycoproteins have adopted their native conformations, they can be demannosylated (denoted by the use of parentheses around the mannoses) by ER mannosidases I and II (ER man-1 and man-II) and exit the ER
  54. What occurs in Route 4A and 4B? What happens after proteins exit the ER?
    Image Upload 21
    • Route 4A: Properly folded proteins exit or leave the ER
    • Route 4B: Proteins that are NOT folding properly are tagged or quarantined for degradation 
    • After proteins exit the ER, they move into the golgi apparatus
  55. State the function and abbreviation if applicable for Glucosyltransferase
    Glucosyltransferase: aka UGGT (UDP-Glucose Glycoprotein Glycosyltransferase in the last picture) functions to ADD glucose
  56. State the function and abbreviation if applicable for Glucosidase
    Glucosidase: functions to REMOVE glucose
  57. State the function and abbreviation if applicable for Mannosidase
    Mannosidase: aka ER Man functions to REMOVE mannose
  58. What is the function of the chaperone complex Calnexin-calreticulin?
    It helps fold proteins inside the ER together with ERP57
  59. Dolichol is a ______ molecule, what are its functions?
    It is an ER lipid that holds onto sugars before transferring them to the protein. Dolichol uses the help of an enzyme called OST (oligosaccharyltransferase) to transfer sugars
  60. What is ERAD? When does it occur?
    • It is a collective terms used for endoplasmic-reticulum associated degradation.
    • This takes place when secretory proteins fail to fold properly and are destined to be degraded
  61. What is ERP57
    ERP57: an enzyme whose function is to form disulfide bonds within secretory proteins within the ER

    • **Recall: that disulfide bonds are formed between the side chains of TWO cysteine residues
    • Image Upload 22
  62. Explain the four meaningful sugar-based codes that can be extracted that
    guide a secretory protein in its passage through the endoplasmic
    reticulum and their meaning (please note code #s are arbitrary)
    • Code 1 → 3 glucose present at edge of glycan
    • Meaning: protein just entered the endoplasmic reticulum, and will undergo folding soon


    • Code 2 → 1 glucose present at edge of the glycan 
    • Meaning: protein is about to enter the folding pathway


    • Code 3 → No glucose present at edge of glycan AND exactly ONE mannose is removed 
    • Meaning: protein is folded and it can leave the endoplasmic reticulum


    • Code 4 → No glucose present at edge of glycan AND a LOT/SOME of mannoses are removed:
    • Meaning: protein does NOT fold and it is degrraded through the ubiquitin-proteosome pathway
Author
aokeiyi
ID
347129
Card Set
Module 4
Description
Biochemistry Module 4
Updated