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Enzymes  I    Department of Biochemistry, FM MU, 2011 (J.D.) General features ,  c ofa ctors
Literatur e for  Biochemi stry  I   Lecture files on  is.muni.cz. Tomandl J., Táborská E.:  Biochemistry I –  Semin ars .  MU,  200 8.  Harvey R.A., Ferrier D.R.:  Biochemistry . 5th ed.,  Lippincott Williams  &  Wilkins, 2011.
General features of enzymes bio catalysts different types of proteins / also RNA (ribozyme)  with covalently attached prosthetic group and/or metal cation, oligomeric / multienzyme complexes / associated with membranes etc. different  distribu tion in cell and in the body, make  i s oform s  (i s oenzym es ) s pecific  ( towards  substr ate and reaction ) , highly effective  work under mild conditions  in vivo  - can be regulated in two ways in vitro  - sensitive to many factors CAUTION:  peptidyltransferase is ribozyme (AK) n -tRNA 1  +  AK-tRNA 2      tRNA 1  +  (AK) n+1 -tRNA 2 rRNA
Enzymes are highly efficient catalysts decrease activation energy     increase the reaction rate   much more efficient than other (inorganic) catalysts remain unchanged after reaction do not alter equilibrium constant  K in vitro  sensitive to many factors
Enzymes work under mild conditions narrow temperature range around  37 °C over 50 °C become denaturated = inactivated narrow pH range     pH optimum most intracellular enzymes have pH optima around 7 digestion enzymes function in rather stronger acidic / alkaline environment (pepsin 1-2, trypsin  ~  8)
Enzymes can be regulated  (see the lecture  Enzym es  II ) Activity of enzyme a ctivators  inhibitors  covalent modification  (phosphorylation ) Quantity of  enzym e regula tion of  proteosynt hesis  a nd  proteol ysis of   enzyme some hormones act as  indu cers  ×  repres s or s
Dual specifity of enzymes towards: Reaction catalyze just  one type of reaction   Substrate work with  one substrate   (or group of similar substrates) often stereospecific
Enzymes are stereospecific catalysts there are two types of stereospecific conversions:  non-chiral substrate     chiral product (one   enantiomer)   pyruvate     L-lactate  fumarate     L-malate chiral substrate (one enantiomer)      product   L-alanine     pyruvate  (D-alanine does not react) D-glucose       pyruvate  (L-glucose does not react) chiral signal molecule    complex with receptor    biological response chiral drug (ant)agonist     complex with receptor    pharmacological response
Hydrogenation of pyruvate When pyruvate is hydrogenated without  enzyme  ( in vitro ),  the reaction product is the  racemic mixture   of D-lactate and L-lactate : In the same reaction catalyzed by lactate dehydrogenase   (in the presence of NADH +H + ),   pyruvate is reduced stereospecifically to  L-lactate   only: 1. non-chiral substrate    chiral product L-Lactate C COOH CH 3 H H O H C C CH 3 O O HO Enzyme L-Lactate  D-Lactate
Non- enzym atic   hydration of fumarate in vitro  reaction proceeds to racemic D,L-malate fumarate L-malate D-malate addition from one side addition from another side 1. non-chiral substrate    chiral product
Enzymatic hydration of fumarate (citrate cycle) in vivo  just one enantiomer (L-malate) is produced reagent substrate 1. non-chiral substrate    chiral product enzyme
Hydrogenation of D-fructose  in vitro   gives two  epimer s 2 H + D-fructose D-glucitol D-mannitol reaction site is planar i n vivo :   enzym atic reaction gives just one product (D-glucitol) 1. non-chiral substrate    chiral product
Chiral substrates /signal molecules  are bound to the stereospecific enzymes /receptors  at three sites: Enzymes  or receptors recognize only one enantiomer If the reactant of an enzymatic reaction is a chiral compound,  only one of the two enantiomers is recognized as the specific substrate. 2. chiral substrate     product see also   MCH II, p.  13 R R X x p roper  enantiomer   n ot-fitting enantiomer
Enzyme nomenclature : the ending  -ase Systematic names  identify the enzymes fully with the  EC  code number ,   contain information about substrate and type of reaction,  not very convenient for everyday use.  Recommended  (accepted)  names  are shorter than systematic names , include also some historical names (pepsin, amylase) EC (abbr. Enzyme Commission) of International Union of Biochemistry (IUB) major class number .  subclass number .  sub-subclass number .  enzyme   serial  number http://www.chem.qmul.ac.uk/iubmb/enzyme/
Examples Recommended name:   alcohol dehydrogenase Systematic name:   EC 1.1.1.1   ethanol:NAD + -oxidoreductase Rea ction :   ethanol + NAD +      acetaldehyde  + NADH + H + Recommended name:   alanine aminotransferase (ALT) Systematic name:   EC 2.6.1.2   L-alanine:2-oxoglutarate-aminotransferase Rea ction :   L-alanine + 2-oxoglutarate     pyruvate  + L-glutamate
Classification of enzymes: six classes according to reaction type   (Each class comprises other subclasses) General scheme of reaction Enzyme class A + B + ATP     A-B  + ADP  + P i 6. Ligases  (synthetases) A-B-C     A-C-B 5. Isomerases A-B     A  + B  (reverse reaction: synthases) 4. Lyases A-B  + H 2 O     A-H  +  B-OH 3. Hydrolases A-B + C     A + C-B 2. Transferases A red  + B ox      A ox  + B red 1. Oxidoreductases
1 Oxidoreductases catalyze  the  oxidation  or  reduction of substrate s ubclasses: dehydrogenases  catalyze transfers of two hydrogen atoms oxygenases  catalyze  the  incorporation of one / two  O  atoms  into the substrate (monooxygenases, dioxygenases) oxidases  catalyze transfers of electrons between substrates (e.g. cytochrome  c  oxidase, ferroxidase) peroxidases  catalyze  the  breakdown of peroxides Example:  lactate  + NAD +      pyruvate  + NADH + H + Recommended name :   lactate  dehydrogenase Systematic name :   ( S )-lactate :NAD +  oxidoreductase
2   Transferases catalyze  the  transfer of a group from one to another substrate s ubclasses: aminotransferases, methyltransferases, glucosyltransferases phosphomutases   –   the  transfer of the group PO 3 2–  within molecule kinases   phosphorylat e  substrate by the transfer  of  phosphoryl group PO 3 2–  from ATP (e.g. hexokinases,   proteinkinases) Example:  glucose + ATP     glucose 6- P  + ADP  Recommended name :  glucokinase Systematic name :  ATP:D-glucose phosphotransferase
Example: P hosphor ylation of glucose glucose   glucose 6-phosphate   gluco kinase
3 Hydrolases Example:  glucose 6- P  + H 2 O      glucose +  P i Recommended name of the enzyme :  glucose 6-phosphatase Systematic name :  glucose 6-phosphate phosphohydrolase catalyze  the  hydrolytic splitting of esters, glycosides,   amides ,  peptides  etc. s ubclasses: esterases  (lipases, phospholipases, ribonucleases,  phosphatases )  glycosidases  (e.g. s ucrase , maltase,  lactase,  amylase) proteinases  and  peptidases  (pepsin, trypsin, cathepsins,      dipeptidases, carboxypeptidases ,  aminopeptidases) amidases  (glutaminase, asparaginase) ATPases  ( split   anhydride bonds of ATP )
Example: Glucose 6-phosphatase Glc 6-P Glc
Compare two antagonistic enzymes kinase phosphatase
Glutaminase is amidase which catalyzes  the  deamidation  of glutamine glutam ate glutamin e glutamin ase
ATPase catalyzes the exergonic hydrolysis  of phosphoanhydride bond in ATP ATP  + H 2 O     ADP  +  P i  +  energ y Example: muscle contraction  myosine head exhibits ATPase activity, chemical energy of ATP is transformed into  mechanical work (= actin-myosin contraction)
Examples of lysosomal h ydrolas es gly c oside gly c oside gly c oside sulfoester gly c oside peptide peptide peptide phosphodiester ester phosphoester amide Glu c osidas e Gala c tosidas e Hyaluronidas e Arylsulfatas e Lysozym e C athepsin Collagenase Elastase Ribonuclease Lipase Phosphatase Ceramidase Bond hydrolyzed Hydrolas e
Distinguish : lysozym e   ×  ly s osom e Lyso zym e   is  en zym e compound word ,  lyso  ( Greek   lysis ) +  zym e  ( from  enzym e ) hydrolas e , gly c osidas e ,  cleaves   β -1,4-gly c osid e bond   in  ba c teri al hetero polysa c charide s, antiseptic defense   occurs in saliva, tears, and other body fluids Lysosom e is intracellular digestion organelle Greek compound word from  lysis   (to lyse) and   soma   (body) typic al for animal cells  acidic  pH,  contains many   acidic  hydrolas es
4 Lyases catalyze  non-hydrolytic   splitting   or   forming   bonds C–C, C–O, C–N, C–S through removing or adding , respectively,   a  small mole c ule  ( H 2 O, CO 2 , NH 3 )   Some frequent recommended names: ammonia lyases  (e.g. histidine ammonia lyas e: histidine    urocanate + NH 3 ) decarboxylases  ( amino acid    amine + CO 2 ) aldolases  (catalyz e  aldol cleavage and formation) ( de ) hydratases  (carbonate dehydratase : CO 2  + H 2 O    H 2 CO 3 ) Example:  fumarate + H 2 O     L-malate  Recommended name :  fumarate hydratase Systematic name: ( S )-malate hydro-lyase (fumarate-forming)
5  Isomerases catalyze intramolecular rearrangements of atoms examples : epimerases racemases mutases Example:  UDP-glucose     UDP-galactose Recommended name :  UDP-glucose 4-epimerase Systematic name:  UDP-glucose 4-epimerase
6  Ligases catalyze formation of high-energy bonds C–C, C–O, C–N  in   the reaction s  coupled with  hydrolysis of ATP Frequent recommended names : carboxylases synthetases  (e.g. glutamine synt h etase : glutamate + ATP + NH 3    glutamine + ADP + P i ) Example:  p yruvate + CO 2  + ATP + H 2 O     oxaloacetate + ADP + P i Recommended name :  pyruvate carboxylase Systematic name: pyruvate:carbon-dioxide ligase (ADP-forming)
T hree  enzym es have something to do with   ph os phate ! (gly c ogen) n   + P i      (gly c ogen) n-1  +  glu c os e 1 -P inosine  +  P i      hypoxanthine + ribose 1-P ph os ph orol ysis  =  the splitting   of  gly c osid e bond by ph os phate   = transfer  of  glu c osyl  to in organic  ph os phate Ph os ph orylas e (Transferas e ) substr ate -O-P  +  H 2 O    substr ate -OH  + P i the h ydrol ysis of ph os ph oester  bond Ph os ph atas e (Hydrolas e ) substr ate -OH  + ATP     substr ate -O-P  + ADP ph os ph oryla tion  = transfer  of ph os ph oryl  PO 3 2–  from ATP   to  substr ate Kinas e (Transferas e ) Reaction s ch eme  /  Reaction type  Enzym e  ( Class )
Distinguish :  Three types of lysis (decomposition   of substrate) ! the cleavage of  C-C  bond  by  s ulfur   atom  of coenzyme A in  β -oxida tion of FA or  keto ne bodies catabolism RCH 2 COCH 2 CO-SCoA + CoA-SH    RCH 2 CO-SCoA + CH 3 CO-SCoA Thiol ysis the cleavage of  O / N -gly c osid e bond  by ph os phate : (gly c ogen) n   + P i      (gly c ogen) n-1  + glu c os e  1-P Ph os ph orol ysis  (see previous page) the decomposition of  substr ate  by water ,  frequent in intestine: sucrose  + H 2 O    glu c os e  + fru c tos e ( starch ) n  + H 2 O     maltos e  + ( starch ) n-2 Hydrol ysis
Cofactors of enzymes low-molecular non-protein compounds many of them are derived from B-complex vitamins many of them are nucleotides transfer 2   H or e -  (cooperate with oxidoreductases) transfer groups (cooperate with transferases) tightly (covalently) attached – prosthetic groups  loosely attached – coenzymes (cosubstrates)
T hree different components in enzyme reaction Notes:  one or two substrates may be involved (dehydrogenation  ×  transamination)  substrate can be low / high molecular (hexokinase  ×  protein kinase) some reactions proceed without cofactor (hydrolysis, isomeration) reaction can be reversible or irreversible (dehydrogenation  ×  decarboxylation) enzyme substrate cofactor  product cofactor altered + + substrate(s)  cofactor  enzyme catalyzes the whole process react to each other
Cofactors of oxidoreductases NAD +  acceptor of 2H NADPH+H +  donor of 2H FAD acceptor of 2H BH 4  donor of 2H electron transfer antioxidant / transfer of   acyl transfer of 2 electrons + 2 H + transfer of 1 electron transfer of 1 electron 2 GSH donor of 2H The function of cofactor NADH+H + NADPH+H + FADH 2 tetrahydrobiopterin (BH 4 ) molybdopterin red dihydrolipoate (2 -SH) ubiquinol (QH 2 ) heme-Fe 2+ non-heme-S-Fe 2+ glutathione red  (GSH) NAD + NADP + FAD Dihydrobiopterin (BH 2 ) Molybdopterin oxid Lipoate (-S-S-) Ubiquinone (Q) Heme-Fe 3+   Non-heme-S-Fe 3+ Glutathione oxid  (G-S-S-G) Reduced form Oxidized form
NAD +  is the cofactor of  dehydrogenas es NAD +  is oxidant – takes off  2 H   from  substr ate one  H  adds as  hydrid e ion  (H - )   into   para- po sition of  pyridini um c ation  of NAD + NAD +  +  H -   =  NADH  =  equivalent of two electrons the second  H  is released as  proton   (H + )   and  binds to enzyme molecule 2 H = H –   +  H +
NAD +   ( n icotinamide  a denine  d inucleotide) ribose diphosphate ribose N-glycosidic linkage N-glycosidic linkage addition of hydride anion anhydride adenine
Redox   p air of co fa c tor oxidized form NAD +   reduced form NADH aromatic ring  aromaticity  totally   disturbed tetravalent nitrogen  trivalent nitrogen positive charge on nitrogen  electroneutral species high-energy compound   !
Dehydrogenation by NAD + typical substrate groups: primary alcohol  -CH 2 -OH secondary alcohol  >CH-OH se condary amine  >CH-NH 2 double bond  (C=O, C=N) is produced
NAD +  dehydrogena tions  form a double bond compare Med. Chem. II Appendix 3 aldehyd e keton e c arboxyl ic acid ester  la c ton e o xo  acid i mino  acid prim ary  al c ohol se condary  al c ohol a ldehyd e  hydr ate hemi acetal  cy clic hemiacetal h ydroxy  acid a mino  acid Produ c t  Substr ate
Dehydrogenation of ethanol (alcohol dehydrogenase)
Dehydrogenation of glutamate (glutamate dehydrogenase) glutamate 2-imino glutarate
NAD + -dependent   enzym es   are called  pyridin e  dehydrogenas es Citr ate  cy cle   isocitr a t e  dehydrogenas e 2-oxoglutar ate  dehydrogenas e mal a t e  dehydrogenas e Gly colysis   glyceraldehyd e  3-P dehydrogenas e la ctate  dehydrogenas e Oxida tion of  ethanol al c ohol   dehydrogenas e acetaldehyd e  dehydrogenas e
Redu ced   c ofa c tor  NADPH+H +  is  hydroge nation agent donor of 2 H in hydrogenations cofactor of  reducing syntheses  (FA, cholesterol) regenera tion of glutathione ( GSH )   in  eryt h rocyte s   cofactor of  hydroxylation reactions: cholesterol       bile acids calciol        calcitriol xenobiotic    hydroxylated xenobiotic general scheme of  hydroxyla tion: R-H +  O 2  + NADP H+H +      R- O H  +  H 2 O   + NADP +
FAD  is   c ofa c tor  of  flavin dehydrogena ses f lavin  a denin e   d inu c leotid e dehydrogena tion of  -CH 2 -CH 2 -  group two   H  atom s are attached to  two  nitrogens of   riboflavin  (N-1 a nd  N-10) FAD + 2H    FADH 2
FAD   ( f lavin  a denine  d inucleotide)  vazba 2H adenine ribosa difosfát ribitol dimethylisoalloxazine ribose diphosphate the sites for accepting two H atoms
Redox   p air of c ofa ctor oxidized form FAD  reduced form FADH 2 aromatic system  aromaticity  partially   disturbed electroneutral species  electroneutral species high-energy compound   !
Dehydrogenation of succinate to  fumar ate (flavin   dehydrogenas e )
T etrahydrobiopterin (BH 4 )  is a cofactor of hydroxylations made in the body from  GTP donor of  2H   oxid ized to  dihydrobiopterin  (BH 2 ) guanine
Redox pair of cofactor
Hydroxyla tion of ph enylalanin e phenylalanine  tyrosine
Coenzyme Q (ubiquinone) derivative of 1,4-benzoquinone cyclic diketone, not aromatic component of respiratory chain gradually accepts electron and proton (2x) reduced to semiubiquinone and ubiquinol
Reversible reduction of ubiquinone R = long polyisoprenoid chain     lipophilic character electron (e - ) and proton (H + ) have different origin:  electron comes from  red.  c ofa c tor s  (=  nutrients ) ,  H +  from matrix of mitochondrion ( n on-aromatic diketone)   ( arom atic ring  + radi cal)   ( di ph enol )   ubiquinone semiubiquinone ubiquinol Q     • QH     QH 2
Heme of various cytochromes transfers just 1 electron cytochromes are  hemoprotein s components of respiratory chain or other heme enzymes (cyt P-450) reversible redox reaction: Fe 2+     Fe 3+
Non-heme iron (Fe 2 S 2  cluster) transfers electron in R.CH. just one iron cation changes oxidation number oxidized state reduced state
Xanthine oxidase catalyzes  the oxygenation of purine bases (catabolism) hypoxanthine     xanthine     uric acid Molybdopterin  (formula in Seminars) side product: H 2 O 2
Sulfite oxidase :  sulfate is catabolite from cysteine  cysteine HSO 3 -  +  H 2 O     SO 4 2-   +  3 H +   +  2 e - pla s ma urine acidify plasma urine reduce Mo (see Seminars, p.  46 ) Molybdopterin
Redox pair lipoate/dihydrolipoate is antioxidant system. It is also involved in the acyl transfer  (see later) oxidized form –  lipoate   (cyclic disulfide 1,2-dithiolane) reduced form -  dihydrolipoate - 2H one S atom transfers acyl in oxidative  decarboxylation of pyruvate / 2-oxoglutarate
Glutathione (GSH) tripeptide γ -glutamyl-cysteinyl-glycine cofactor of glutathione peroxidase (contains selenocysteine) reduces H 2 O 2  to water 2 G-SH  +  H-O-O-H     G-S-S-G  +  2 H 2 O Remember: The -SH compounds have generally reducing properties.
Dehydrogenation of  two  GSH molecules
Vitamins and cofactors of transferases -NH 2  (transamination) -PO 3 2-  (phosphoryl) -SO 3 2- CO 2   acyl  acyl -CH 3 C 1  groups -CH 3   r esidue  of oxo acid Transferred group pyridoxal phosphate ATP PAPS carboxybiotin CoA-SH dihydrolipoate SAM tetrahydrofolate methylcobalamin t hiamin diphosphate Pyridoxin (Made in body) (Made in body) Biotin Pantothenic acid (Made in body) ( Methionin e) Folate Cyanocobalamin Thiamin Cofactor  Vitamin
Pyridoxal phosphate is the cofactor  of transamination and decarboxylation of AA aldimine  (Schiff base) - H 2 O transamination decarboxylation
Two phases of  transamina tion   Schiff  base amino acid oxo acid glutamate 2-oxoglutarate blue colour indicates the pathway of nitrogen
ATP is the cofactor of kinases (phosphorylation agent) N-glycoside  bond ester anhydride
Phosphorylation of substrate substrate kinase phosphorylated substrate CAUTION: creatine kinase (CK) phosphorylation on nitrogen (the bond N-P)
PAPS is sulfation agent 3 ’- ph osfoadenosin e -5’- phosphosulfate mixed anhydride of   H 2 SO 4  and H 3 PO 4 esterification of hydroxyl groups by sulfuric acid = sulfation sulfated sphingoglycolipids sulfated glycosaminoglycans (heparin, chondroitin sulfate, keratan sulfate)
Carboxybiotin cofactor of carboxylation reactions  carboxylation of biotin needs ATP carboxybiotin biotin
Carboxybiotin is the cofactor of carboxylation reactions + pyruvate oxaloacetate pyruvate carboxylase
Distinguish: Decarboxylation  vs.  Carboxylation ! protein-glutamate + O 2  + vit K red  + CO 2     protein- γ -carboxyglutamate  posttranslational carboxylation of glutamate    hemostasis Phylloquinone (vitamin K) Hb-NH 2  + CO 2     Hb-NH-COOH (unstable Hb-carbamate, spontaneous) None pyruvate + CO 2  + ATP    oxaloacetate acetyl-CoA + CO 2  + ATP    malonyl-CoA propionyl-CoA + CO 2  + ATP    methylmalonyl-CoA    succinyl-CoA carboxylations (ATP) in the catabolism of Val, Leu, Ile Biotin Carboxylation (requires energy) Cofactor acetoacetate    acetone + CO 2  (non-enzymatic, spontaneous) None amino acid    amine + CO 2 Pyridoxal-P pyruvate    acetyl-CoA + CO 2   2-oxoglutarate    succinyl-CoA + CO 2 Thiamin-diP Decarboxylation (does not require energy) Cofactor
Coenzyme A (CoA-SH) transfers acyl  attached to sulfur atom thioester bond a cyl -CoA  is  a c tiv ated  acyl  e.g. acetyl-CoA
Coenzyme A acyl ~ O O H C H 2 O P O O O O P O O O N N N N N H 2 H O P O O O C H 2 C HS C H 2 C H 2 H N O C C H 2 C H 2 H N O C C H C H 3 C H 3 Cysteamine β-Alanine  Pantoic acid Pantothenic acid 3´ - PhosphoADP
Lipo ate  ( lipoamide ) part of the  2-oxo   acid dehydrogenase complex  (see the following lectures)   it is  oxidant of  a group  carried by thiamine  d iphosphate  (TDP ),  binds the resulting acyl as thioester and transfers the acyl to coenzyme A: S S CO– NH –L ys–Enzyme Lipoamide ( oxidized  form) S 6 -Acyldihydrolipoamide (reduced form) S H CO– NH – Lys–Enzyme S H S H CO– NH –L ys–Enzyme S R-CO –   2 H R 1 -C H – TDP O H CoA-S H R-CO–S-CoA Dihydrolipoamide ( reduced  form) H –TDP
S -Adenosylmethionine (SAM) „ active methyl“, trivalent sulfur     sulfonium cation cofactor of methylation reactions:  ethanolami n e   -> cholin e  (3 ×  methylation) guanidine acetate  ->  creatine  noradrenaline  ->  adrenaline .....  and many others side product is  homocysteine remethylation of homocysteine needs methyl-FH 4  + B 12  cofactor  (see Seminars, p. 27 and 45)
S -Adenosylmethionine (SAM)
Folic acid  is vitamin.  In the body,  it  is  hydrogen ated to  5,6,7,8-tetrahydrofol ate . Tetrahydrofol ate  (FH 4 )  is c ofa c tor  for   the transfer of  C 1   groups amid 5 6 7 8 p-aminobenzoic acid glutamic acid amide pteridine transfer of 1C groups
C 1  Groups transferred by FH 4 compare scheme Seminars, p. 26 catabolism of histidine formimino -CH=NH +I catabolism of tryptophan    formiate    formyl  synthesis of purine bases formyl -CH=O +I deamination of formimino-FH 4  (from histidine)   synthesis of purine bases methenyl -CH= -I catabolism of serine, glycine  used in synthesis of dTMP    DNA methylene -CH 2 - -II reduction of methylene-FH 4  (from serine, glycine)  methyl-FH 4  cooperates with B 12  cofactor in methylation methyl -CH 3 -III Metabolic Origin / Comment Name Formula Oxidation number of C
B 12  vitamin is  cyano  or  hydroxo cobalamin R = CN  or  OH c o r rin  cycle hydroxo c obalamin  is   used in the treatment of cyanide poisoning - binds cyanide ions  to non-toxic cyanocobalamin
B 12  cofactor is  methyl  or  deoxyadenosyl cobalamin,  it is needed for  two  reactions in the body homocysteine     methionine  methylation of homocysteine (regeneration of methionine) homocysteine         propionyl-CoA     succinyl-CoA  you can see both reactions in Seminars, p. 45 B 12 FH 4  / B 12
Compare: Four different cofactors of methylations SAM =  S -adenosylmethionine, FH 4  = tetrahydrofolate, COMT = catechol  O -methyltransferase ! homocysteine    methionine methyl-FH 4 methyl-B 12 dUMP    dTMP serine, glycine methylene-FH 4 homocysteine    methionine methylene-FH 4 methyl-FH 4 ethanolamine    choline guanidineacetate    creatine noradrenaline    adrenaline the methylation of DNA (regulation of gene expression) methylation of bases in tRNA / mRNA (guanine-N 7  = cap) the inactivation of catecholamines (COMT): dopamine    methoxytyramine noradrenaline    normetanephrine adrenaline    metanephrine the methylation of xenobiotics (II. phase - conjugation) methionine SAM Examples of methylation reactions Methyl origin Cofactor -CH 2 -
Thiamin is   vitamin B 1 Thiamin diphosphate (TDP) is cofactor Oxidative decarboxylation of some 2-oxo acids  pyruvate    acetyl-CoA 2-oxoglutar ate    su c cinyl-CoA ( citrate cycle ) 2-oxo acids in the catabolism of Val, Leu, Ile Transketolase reactions in pentose cycle  ribose-5-P + xylulose-5-P    glyceraldehyd-3-P + sedoheptulose-7-P xylulose-5-P + erythrose-4-P    fructose-6-P + glyceraldehyd-3-P transfer to  dihydrolipoate and CoA
Thiamin   di phosphate  (TDP)  is   the c ofa c tor   of   the  oxida tive  de c arboxyla tion of  pyruv ate glu c os e     pyruv ate      acetyl-CoA C A C TDP attachment of  pyruv ate and its  de c arboxyla tion
In human body, a number of  non-enzymatic  reactions proceeds decarboxylation of acetoacetate    acetone glycation / carbamylation / nitrosylation / nitration of proteins the reactions of ROS (reactive oxygen species, e.g. lipoperoxidation) spontaneous oxidation of hemoproteins (hemoglobin    methemoglobin) spontaneous oxidation of urobilinogens to urobilins (large intestine) condensation of amines with carbonyl compounds to heterocyclic derivatives  dopamine + pyruvate    salsolinol tryptamine + pyruvate    harmane dopamine + dihydroxyphenylacetaldehyde    tetrahydropapaveroline binding ligands to proteins: bilirubin + albumin    bilirubin-albumin complex CO + hemoglobin    carbonylhemoglobin the interactions of macromolecules: antigen + antibody    immuno complex neurotoxins

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Enzymes 1

  • 1. Enzymes I  Department of Biochemistry, FM MU, 2011 (J.D.) General features , c ofa ctors
  • 2. Literatur e for Biochemi stry I Lecture files on is.muni.cz. Tomandl J., Táborská E.: Biochemistry I – Semin ars . MU, 200 8. Harvey R.A., Ferrier D.R.: Biochemistry . 5th ed., Lippincott Williams & Wilkins, 2011.
  • 3. General features of enzymes bio catalysts different types of proteins / also RNA (ribozyme) with covalently attached prosthetic group and/or metal cation, oligomeric / multienzyme complexes / associated with membranes etc. different distribu tion in cell and in the body, make i s oform s (i s oenzym es ) s pecific ( towards substr ate and reaction ) , highly effective work under mild conditions in vivo - can be regulated in two ways in vitro - sensitive to many factors CAUTION: peptidyltransferase is ribozyme (AK) n -tRNA 1 + AK-tRNA 2  tRNA 1 + (AK) n+1 -tRNA 2 rRNA
  • 4. Enzymes are highly efficient catalysts decrease activation energy  increase the reaction rate much more efficient than other (inorganic) catalysts remain unchanged after reaction do not alter equilibrium constant K in vitro sensitive to many factors
  • 5. Enzymes work under mild conditions narrow temperature range around 37 °C over 50 °C become denaturated = inactivated narrow pH range  pH optimum most intracellular enzymes have pH optima around 7 digestion enzymes function in rather stronger acidic / alkaline environment (pepsin 1-2, trypsin ~ 8)
  • 6. Enzymes can be regulated (see the lecture Enzym es II ) Activity of enzyme a ctivators inhibitors covalent modification (phosphorylation ) Quantity of enzym e regula tion of proteosynt hesis a nd proteol ysis of enzyme some hormones act as indu cers × repres s or s
  • 7. Dual specifity of enzymes towards: Reaction catalyze just one type of reaction Substrate work with one substrate (or group of similar substrates) often stereospecific
  • 8. Enzymes are stereospecific catalysts there are two types of stereospecific conversions: non-chiral substrate  chiral product (one enantiomer) pyruvate  L-lactate fumarate  L-malate chiral substrate (one enantiomer)  product L-alanine  pyruvate (D-alanine does not react) D-glucose   pyruvate (L-glucose does not react) chiral signal molecule  complex with receptor  biological response chiral drug (ant)agonist  complex with receptor  pharmacological response
  • 9. Hydrogenation of pyruvate When pyruvate is hydrogenated without enzyme ( in vitro ), the reaction product is the racemic mixture of D-lactate and L-lactate : In the same reaction catalyzed by lactate dehydrogenase (in the presence of NADH +H + ), pyruvate is reduced stereospecifically to L-lactate only: 1. non-chiral substrate  chiral product L-Lactate C COOH CH 3 H H O H C C CH 3 O O HO Enzyme L-Lactate D-Lactate
  • 10. Non- enzym atic hydration of fumarate in vitro reaction proceeds to racemic D,L-malate fumarate L-malate D-malate addition from one side addition from another side 1. non-chiral substrate  chiral product
  • 11. Enzymatic hydration of fumarate (citrate cycle) in vivo just one enantiomer (L-malate) is produced reagent substrate 1. non-chiral substrate  chiral product enzyme
  • 12. Hydrogenation of D-fructose in vitro gives two epimer s 2 H + D-fructose D-glucitol D-mannitol reaction site is planar i n vivo : enzym atic reaction gives just one product (D-glucitol) 1. non-chiral substrate  chiral product
  • 13. Chiral substrates /signal molecules are bound to the stereospecific enzymes /receptors at three sites: Enzymes or receptors recognize only one enantiomer If the reactant of an enzymatic reaction is a chiral compound, only one of the two enantiomers is recognized as the specific substrate. 2. chiral substrate  product see also MCH II, p. 13 R R X x p roper enantiomer n ot-fitting enantiomer
  • 14. Enzyme nomenclature : the ending -ase Systematic names identify the enzymes fully with the EC code number , contain information about substrate and type of reaction, not very convenient for everyday use. Recommended (accepted) names are shorter than systematic names , include also some historical names (pepsin, amylase) EC (abbr. Enzyme Commission) of International Union of Biochemistry (IUB) major class number . subclass number . sub-subclass number . enzyme serial number http://www.chem.qmul.ac.uk/iubmb/enzyme/
  • 15. Examples Recommended name: alcohol dehydrogenase Systematic name: EC 1.1.1.1 ethanol:NAD + -oxidoreductase Rea ction : ethanol + NAD +  acetaldehyde + NADH + H + Recommended name: alanine aminotransferase (ALT) Systematic name: EC 2.6.1.2 L-alanine:2-oxoglutarate-aminotransferase Rea ction : L-alanine + 2-oxoglutarate  pyruvate + L-glutamate
  • 16. Classification of enzymes: six classes according to reaction type (Each class comprises other subclasses) General scheme of reaction Enzyme class A + B + ATP  A-B + ADP + P i 6. Ligases (synthetases) A-B-C  A-C-B 5. Isomerases A-B  A + B (reverse reaction: synthases) 4. Lyases A-B + H 2 O  A-H + B-OH 3. Hydrolases A-B + C  A + C-B 2. Transferases A red + B ox  A ox + B red 1. Oxidoreductases
  • 17. 1 Oxidoreductases catalyze the oxidation or reduction of substrate s ubclasses: dehydrogenases catalyze transfers of two hydrogen atoms oxygenases catalyze the incorporation of one / two O atoms into the substrate (monooxygenases, dioxygenases) oxidases catalyze transfers of electrons between substrates (e.g. cytochrome c oxidase, ferroxidase) peroxidases catalyze the breakdown of peroxides Example: lactate + NAD +  pyruvate + NADH + H + Recommended name : lactate dehydrogenase Systematic name : ( S )-lactate :NAD + oxidoreductase
  • 18. 2 Transferases catalyze the transfer of a group from one to another substrate s ubclasses: aminotransferases, methyltransferases, glucosyltransferases phosphomutases – the transfer of the group PO 3 2– within molecule kinases phosphorylat e substrate by the transfer of phosphoryl group PO 3 2– from ATP (e.g. hexokinases, proteinkinases) Example: glucose + ATP  glucose 6- P + ADP Recommended name : glucokinase Systematic name : ATP:D-glucose phosphotransferase
  • 19. Example: P hosphor ylation of glucose glucose glucose 6-phosphate gluco kinase
  • 20. 3 Hydrolases Example: glucose 6- P + H 2 O  glucose + P i Recommended name of the enzyme : glucose 6-phosphatase Systematic name : glucose 6-phosphate phosphohydrolase catalyze the hydrolytic splitting of esters, glycosides, amides , peptides etc. s ubclasses: esterases (lipases, phospholipases, ribonucleases, phosphatases ) glycosidases (e.g. s ucrase , maltase, lactase, amylase) proteinases and peptidases (pepsin, trypsin, cathepsins, dipeptidases, carboxypeptidases , aminopeptidases) amidases (glutaminase, asparaginase) ATPases ( split anhydride bonds of ATP )
  • 22. Compare two antagonistic enzymes kinase phosphatase
  • 23. Glutaminase is amidase which catalyzes the deamidation of glutamine glutam ate glutamin e glutamin ase
  • 24. ATPase catalyzes the exergonic hydrolysis of phosphoanhydride bond in ATP ATP + H 2 O  ADP + P i + energ y Example: muscle contraction myosine head exhibits ATPase activity, chemical energy of ATP is transformed into mechanical work (= actin-myosin contraction)
  • 25. Examples of lysosomal h ydrolas es gly c oside gly c oside gly c oside sulfoester gly c oside peptide peptide peptide phosphodiester ester phosphoester amide Glu c osidas e Gala c tosidas e Hyaluronidas e Arylsulfatas e Lysozym e C athepsin Collagenase Elastase Ribonuclease Lipase Phosphatase Ceramidase Bond hydrolyzed Hydrolas e
  • 26. Distinguish : lysozym e × ly s osom e Lyso zym e is en zym e compound word , lyso ( Greek lysis ) + zym e ( from enzym e ) hydrolas e , gly c osidas e , cleaves β -1,4-gly c osid e bond in ba c teri al hetero polysa c charide s, antiseptic defense occurs in saliva, tears, and other body fluids Lysosom e is intracellular digestion organelle Greek compound word from lysis (to lyse) and soma (body) typic al for animal cells acidic pH, contains many acidic hydrolas es
  • 27. 4 Lyases catalyze non-hydrolytic splitting or forming bonds C–C, C–O, C–N, C–S through removing or adding , respectively, a small mole c ule ( H 2 O, CO 2 , NH 3 ) Some frequent recommended names: ammonia lyases (e.g. histidine ammonia lyas e: histidine  urocanate + NH 3 ) decarboxylases ( amino acid  amine + CO 2 ) aldolases (catalyz e aldol cleavage and formation) ( de ) hydratases (carbonate dehydratase : CO 2 + H 2 O  H 2 CO 3 ) Example: fumarate + H 2 O  L-malate Recommended name : fumarate hydratase Systematic name: ( S )-malate hydro-lyase (fumarate-forming)
  • 28. 5 Isomerases catalyze intramolecular rearrangements of atoms examples : epimerases racemases mutases Example: UDP-glucose  UDP-galactose Recommended name : UDP-glucose 4-epimerase Systematic name: UDP-glucose 4-epimerase
  • 29. 6 Ligases catalyze formation of high-energy bonds C–C, C–O, C–N in the reaction s coupled with hydrolysis of ATP Frequent recommended names : carboxylases synthetases (e.g. glutamine synt h etase : glutamate + ATP + NH 3  glutamine + ADP + P i ) Example: p yruvate + CO 2 + ATP + H 2 O  oxaloacetate + ADP + P i Recommended name : pyruvate carboxylase Systematic name: pyruvate:carbon-dioxide ligase (ADP-forming)
  • 30. T hree enzym es have something to do with ph os phate ! (gly c ogen) n + P i  (gly c ogen) n-1 + glu c os e 1 -P inosine + P i  hypoxanthine + ribose 1-P ph os ph orol ysis = the splitting of gly c osid e bond by ph os phate = transfer of glu c osyl to in organic ph os phate Ph os ph orylas e (Transferas e ) substr ate -O-P + H 2 O  substr ate -OH + P i the h ydrol ysis of ph os ph oester bond Ph os ph atas e (Hydrolas e ) substr ate -OH + ATP  substr ate -O-P + ADP ph os ph oryla tion = transfer of ph os ph oryl PO 3 2– from ATP to substr ate Kinas e (Transferas e ) Reaction s ch eme / Reaction type Enzym e ( Class )
  • 31. Distinguish : Three types of lysis (decomposition of substrate) ! the cleavage of C-C bond by s ulfur atom of coenzyme A in β -oxida tion of FA or keto ne bodies catabolism RCH 2 COCH 2 CO-SCoA + CoA-SH  RCH 2 CO-SCoA + CH 3 CO-SCoA Thiol ysis the cleavage of O / N -gly c osid e bond by ph os phate : (gly c ogen) n + P i  (gly c ogen) n-1 + glu c os e 1-P Ph os ph orol ysis (see previous page) the decomposition of substr ate by water , frequent in intestine: sucrose + H 2 O  glu c os e + fru c tos e ( starch ) n + H 2 O  maltos e + ( starch ) n-2 Hydrol ysis
  • 32. Cofactors of enzymes low-molecular non-protein compounds many of them are derived from B-complex vitamins many of them are nucleotides transfer 2 H or e - (cooperate with oxidoreductases) transfer groups (cooperate with transferases) tightly (covalently) attached – prosthetic groups loosely attached – coenzymes (cosubstrates)
  • 33. T hree different components in enzyme reaction Notes: one or two substrates may be involved (dehydrogenation × transamination) substrate can be low / high molecular (hexokinase × protein kinase) some reactions proceed without cofactor (hydrolysis, isomeration) reaction can be reversible or irreversible (dehydrogenation × decarboxylation) enzyme substrate cofactor  product cofactor altered + + substrate(s) cofactor enzyme catalyzes the whole process react to each other
  • 34. Cofactors of oxidoreductases NAD + acceptor of 2H NADPH+H + donor of 2H FAD acceptor of 2H BH 4 donor of 2H electron transfer antioxidant / transfer of acyl transfer of 2 electrons + 2 H + transfer of 1 electron transfer of 1 electron 2 GSH donor of 2H The function of cofactor NADH+H + NADPH+H + FADH 2 tetrahydrobiopterin (BH 4 ) molybdopterin red dihydrolipoate (2 -SH) ubiquinol (QH 2 ) heme-Fe 2+ non-heme-S-Fe 2+ glutathione red (GSH) NAD + NADP + FAD Dihydrobiopterin (BH 2 ) Molybdopterin oxid Lipoate (-S-S-) Ubiquinone (Q) Heme-Fe 3+ Non-heme-S-Fe 3+ Glutathione oxid (G-S-S-G) Reduced form Oxidized form
  • 35. NAD + is the cofactor of dehydrogenas es NAD + is oxidant – takes off 2 H from substr ate one H adds as hydrid e ion (H - ) into para- po sition of pyridini um c ation of NAD + NAD + + H - = NADH = equivalent of two electrons the second H is released as proton (H + ) and binds to enzyme molecule 2 H = H – + H +
  • 36. NAD + ( n icotinamide a denine d inucleotide) ribose diphosphate ribose N-glycosidic linkage N-glycosidic linkage addition of hydride anion anhydride adenine
  • 37. Redox p air of co fa c tor oxidized form NAD + reduced form NADH aromatic ring aromaticity totally disturbed tetravalent nitrogen trivalent nitrogen positive charge on nitrogen electroneutral species high-energy compound !
  • 38. Dehydrogenation by NAD + typical substrate groups: primary alcohol -CH 2 -OH secondary alcohol >CH-OH se condary amine >CH-NH 2 double bond (C=O, C=N) is produced
  • 39. NAD + dehydrogena tions form a double bond compare Med. Chem. II Appendix 3 aldehyd e keton e c arboxyl ic acid ester la c ton e o xo acid i mino acid prim ary al c ohol se condary al c ohol a ldehyd e hydr ate hemi acetal cy clic hemiacetal h ydroxy acid a mino acid Produ c t Substr ate
  • 40. Dehydrogenation of ethanol (alcohol dehydrogenase)
  • 41. Dehydrogenation of glutamate (glutamate dehydrogenase) glutamate 2-imino glutarate
  • 42. NAD + -dependent enzym es are called pyridin e dehydrogenas es Citr ate cy cle isocitr a t e dehydrogenas e 2-oxoglutar ate dehydrogenas e mal a t e dehydrogenas e Gly colysis glyceraldehyd e 3-P dehydrogenas e la ctate dehydrogenas e Oxida tion of ethanol al c ohol dehydrogenas e acetaldehyd e dehydrogenas e
  • 43. Redu ced c ofa c tor NADPH+H + is hydroge nation agent donor of 2 H in hydrogenations cofactor of reducing syntheses (FA, cholesterol) regenera tion of glutathione ( GSH ) in eryt h rocyte s cofactor of hydroxylation reactions: cholesterol   bile acids calciol   calcitriol xenobiotic  hydroxylated xenobiotic general scheme of hydroxyla tion: R-H + O 2 + NADP H+H +  R- O H + H 2 O + NADP +
  • 44. FAD is c ofa c tor of flavin dehydrogena ses f lavin a denin e d inu c leotid e dehydrogena tion of -CH 2 -CH 2 - group two H atom s are attached to two nitrogens of riboflavin (N-1 a nd N-10) FAD + 2H  FADH 2
  • 45. FAD ( f lavin a denine d inucleotide) vazba 2H adenine ribosa difosfát ribitol dimethylisoalloxazine ribose diphosphate the sites for accepting two H atoms
  • 46. Redox p air of c ofa ctor oxidized form FAD reduced form FADH 2 aromatic system aromaticity partially disturbed electroneutral species electroneutral species high-energy compound !
  • 47. Dehydrogenation of succinate to fumar ate (flavin dehydrogenas e )
  • 48. T etrahydrobiopterin (BH 4 ) is a cofactor of hydroxylations made in the body from GTP donor of 2H oxid ized to dihydrobiopterin (BH 2 ) guanine
  • 49. Redox pair of cofactor
  • 50. Hydroxyla tion of ph enylalanin e phenylalanine tyrosine
  • 51. Coenzyme Q (ubiquinone) derivative of 1,4-benzoquinone cyclic diketone, not aromatic component of respiratory chain gradually accepts electron and proton (2x) reduced to semiubiquinone and ubiquinol
  • 52. Reversible reduction of ubiquinone R = long polyisoprenoid chain  lipophilic character electron (e - ) and proton (H + ) have different origin: electron comes from red. c ofa c tor s (= nutrients ) , H + from matrix of mitochondrion ( n on-aromatic diketone) ( arom atic ring + radi cal) ( di ph enol ) ubiquinone semiubiquinone ubiquinol Q  • QH  QH 2
  • 53. Heme of various cytochromes transfers just 1 electron cytochromes are hemoprotein s components of respiratory chain or other heme enzymes (cyt P-450) reversible redox reaction: Fe 2+  Fe 3+
  • 54. Non-heme iron (Fe 2 S 2 cluster) transfers electron in R.CH. just one iron cation changes oxidation number oxidized state reduced state
  • 55. Xanthine oxidase catalyzes the oxygenation of purine bases (catabolism) hypoxanthine  xanthine  uric acid Molybdopterin (formula in Seminars) side product: H 2 O 2
  • 56. Sulfite oxidase : sulfate is catabolite from cysteine cysteine HSO 3 - + H 2 O  SO 4 2- + 3 H + + 2 e - pla s ma urine acidify plasma urine reduce Mo (see Seminars, p. 46 ) Molybdopterin
  • 57. Redox pair lipoate/dihydrolipoate is antioxidant system. It is also involved in the acyl transfer (see later) oxidized form – lipoate (cyclic disulfide 1,2-dithiolane) reduced form - dihydrolipoate - 2H one S atom transfers acyl in oxidative decarboxylation of pyruvate / 2-oxoglutarate
  • 58. Glutathione (GSH) tripeptide γ -glutamyl-cysteinyl-glycine cofactor of glutathione peroxidase (contains selenocysteine) reduces H 2 O 2 to water 2 G-SH + H-O-O-H  G-S-S-G + 2 H 2 O Remember: The -SH compounds have generally reducing properties.
  • 59. Dehydrogenation of two GSH molecules
  • 60. Vitamins and cofactors of transferases -NH 2 (transamination) -PO 3 2- (phosphoryl) -SO 3 2- CO 2 acyl acyl -CH 3 C 1 groups -CH 3 r esidue of oxo acid Transferred group pyridoxal phosphate ATP PAPS carboxybiotin CoA-SH dihydrolipoate SAM tetrahydrofolate methylcobalamin t hiamin diphosphate Pyridoxin (Made in body) (Made in body) Biotin Pantothenic acid (Made in body) ( Methionin e) Folate Cyanocobalamin Thiamin Cofactor Vitamin
  • 61. Pyridoxal phosphate is the cofactor of transamination and decarboxylation of AA aldimine (Schiff base) - H 2 O transamination decarboxylation
  • 62. Two phases of transamina tion Schiff base amino acid oxo acid glutamate 2-oxoglutarate blue colour indicates the pathway of nitrogen
  • 63. ATP is the cofactor of kinases (phosphorylation agent) N-glycoside bond ester anhydride
  • 64. Phosphorylation of substrate substrate kinase phosphorylated substrate CAUTION: creatine kinase (CK) phosphorylation on nitrogen (the bond N-P)
  • 65. PAPS is sulfation agent 3 ’- ph osfoadenosin e -5’- phosphosulfate mixed anhydride of H 2 SO 4 and H 3 PO 4 esterification of hydroxyl groups by sulfuric acid = sulfation sulfated sphingoglycolipids sulfated glycosaminoglycans (heparin, chondroitin sulfate, keratan sulfate)
  • 66. Carboxybiotin cofactor of carboxylation reactions carboxylation of biotin needs ATP carboxybiotin biotin
  • 67. Carboxybiotin is the cofactor of carboxylation reactions + pyruvate oxaloacetate pyruvate carboxylase
  • 68. Distinguish: Decarboxylation vs. Carboxylation ! protein-glutamate + O 2 + vit K red + CO 2  protein- γ -carboxyglutamate posttranslational carboxylation of glutamate  hemostasis Phylloquinone (vitamin K) Hb-NH 2 + CO 2  Hb-NH-COOH (unstable Hb-carbamate, spontaneous) None pyruvate + CO 2 + ATP  oxaloacetate acetyl-CoA + CO 2 + ATP  malonyl-CoA propionyl-CoA + CO 2 + ATP  methylmalonyl-CoA  succinyl-CoA carboxylations (ATP) in the catabolism of Val, Leu, Ile Biotin Carboxylation (requires energy) Cofactor acetoacetate  acetone + CO 2 (non-enzymatic, spontaneous) None amino acid  amine + CO 2 Pyridoxal-P pyruvate  acetyl-CoA + CO 2 2-oxoglutarate  succinyl-CoA + CO 2 Thiamin-diP Decarboxylation (does not require energy) Cofactor
  • 69. Coenzyme A (CoA-SH) transfers acyl attached to sulfur atom thioester bond a cyl -CoA is a c tiv ated acyl e.g. acetyl-CoA
  • 70. Coenzyme A acyl ~ O O H C H 2 O P O O O O P O O O N N N N N H 2 H O P O O O C H 2 C HS C H 2 C H 2 H N O C C H 2 C H 2 H N O C C H C H 3 C H 3 Cysteamine β-Alanine Pantoic acid Pantothenic acid 3´ - PhosphoADP
  • 71. Lipo ate ( lipoamide ) part of the 2-oxo acid dehydrogenase complex (see the following lectures) it is oxidant of a group carried by thiamine d iphosphate (TDP ), binds the resulting acyl as thioester and transfers the acyl to coenzyme A: S S CO– NH –L ys–Enzyme Lipoamide ( oxidized form) S 6 -Acyldihydrolipoamide (reduced form) S H CO– NH – Lys–Enzyme S H S H CO– NH –L ys–Enzyme S R-CO – 2 H R 1 -C H – TDP O H CoA-S H R-CO–S-CoA Dihydrolipoamide ( reduced form) H –TDP
  • 72. S -Adenosylmethionine (SAM) „ active methyl“, trivalent sulfur  sulfonium cation cofactor of methylation reactions: ethanolami n e -> cholin e (3 × methylation) guanidine acetate -> creatine noradrenaline -> adrenaline ..... and many others side product is homocysteine remethylation of homocysteine needs methyl-FH 4 + B 12 cofactor (see Seminars, p. 27 and 45)
  • 74. Folic acid is vitamin. In the body, it is hydrogen ated to 5,6,7,8-tetrahydrofol ate . Tetrahydrofol ate (FH 4 ) is c ofa c tor for the transfer of C 1 groups amid 5 6 7 8 p-aminobenzoic acid glutamic acid amide pteridine transfer of 1C groups
  • 75. C 1 Groups transferred by FH 4 compare scheme Seminars, p. 26 catabolism of histidine formimino -CH=NH +I catabolism of tryptophan  formiate  formyl synthesis of purine bases formyl -CH=O +I deamination of formimino-FH 4 (from histidine) synthesis of purine bases methenyl -CH= -I catabolism of serine, glycine used in synthesis of dTMP  DNA methylene -CH 2 - -II reduction of methylene-FH 4 (from serine, glycine) methyl-FH 4 cooperates with B 12 cofactor in methylation methyl -CH 3 -III Metabolic Origin / Comment Name Formula Oxidation number of C
  • 76. B 12 vitamin is cyano or hydroxo cobalamin R = CN or OH c o r rin cycle hydroxo c obalamin is used in the treatment of cyanide poisoning - binds cyanide ions to non-toxic cyanocobalamin
  • 77. B 12 cofactor is methyl or deoxyadenosyl cobalamin, it is needed for two reactions in the body homocysteine  methionine methylation of homocysteine (regeneration of methionine) homocysteine   propionyl-CoA  succinyl-CoA you can see both reactions in Seminars, p. 45 B 12 FH 4 / B 12
  • 78. Compare: Four different cofactors of methylations SAM = S -adenosylmethionine, FH 4 = tetrahydrofolate, COMT = catechol O -methyltransferase ! homocysteine  methionine methyl-FH 4 methyl-B 12 dUMP  dTMP serine, glycine methylene-FH 4 homocysteine  methionine methylene-FH 4 methyl-FH 4 ethanolamine  choline guanidineacetate  creatine noradrenaline  adrenaline the methylation of DNA (regulation of gene expression) methylation of bases in tRNA / mRNA (guanine-N 7 = cap) the inactivation of catecholamines (COMT): dopamine  methoxytyramine noradrenaline  normetanephrine adrenaline  metanephrine the methylation of xenobiotics (II. phase - conjugation) methionine SAM Examples of methylation reactions Methyl origin Cofactor -CH 2 -
  • 79. Thiamin is vitamin B 1 Thiamin diphosphate (TDP) is cofactor Oxidative decarboxylation of some 2-oxo acids pyruvate  acetyl-CoA 2-oxoglutar ate  su c cinyl-CoA ( citrate cycle ) 2-oxo acids in the catabolism of Val, Leu, Ile Transketolase reactions in pentose cycle ribose-5-P + xylulose-5-P  glyceraldehyd-3-P + sedoheptulose-7-P xylulose-5-P + erythrose-4-P  fructose-6-P + glyceraldehyd-3-P transfer to dihydrolipoate and CoA
  • 80. Thiamin di phosphate (TDP) is the c ofa c tor of the oxida tive de c arboxyla tion of pyruv ate glu c os e  pyruv ate  acetyl-CoA C A C TDP attachment of pyruv ate and its de c arboxyla tion
  • 81. In human body, a number of non-enzymatic reactions proceeds decarboxylation of acetoacetate  acetone glycation / carbamylation / nitrosylation / nitration of proteins the reactions of ROS (reactive oxygen species, e.g. lipoperoxidation) spontaneous oxidation of hemoproteins (hemoglobin  methemoglobin) spontaneous oxidation of urobilinogens to urobilins (large intestine) condensation of amines with carbonyl compounds to heterocyclic derivatives dopamine + pyruvate  salsolinol tryptamine + pyruvate  harmane dopamine + dihydroxyphenylacetaldehyde  tetrahydropapaveroline binding ligands to proteins: bilirubin + albumin  bilirubin-albumin complex CO + hemoglobin  carbonylhemoglobin the interactions of macromolecules: antigen + antibody  immuno complex neurotoxins