Hemoglobin

1. Deepa John Harini Chandra Hemoglobin Hemoglobin (Hb) is an iron-containing metalloprotein that functions to transport oxygen in the red blood cells of vertebrates. The protein, which accounts for 97% of the RBC’s dry content is responsible for delivering oxygen from the lungs to all other tissues in the body where it is taken up for cell use. ‏

2. Master Layout (Part 1) 1 This animation consists of 5 parts: Part 1 – Structure of hemoglobin Part 2 – Oxygen binding & structural changes Part 3 – Factors affecting oxygen binding Part 4 – Hemoglobin disorders Part 5 – Comparative study of hemoglobin & myoglobin Propionate Heme Fe-Protoporphyrin IX 2 Quaternary structure of Hemoglobin α1 3 β1 α2 β2 4 Methyl groups Pyrrole rings Vinyl chains 5 Source: Biochemistry by Lubert Stryer, 6th edition (ebook)

3. Definitions of the components:Part 1 – Structure of hemoglobin 1 1. Hemoglobin: Hemoglobin is the predominat metalloprotein in the red blood cells that carries oxygen. Each hemoglobin molecule is made up of four heme groups surrounding a globin group. 2. a, b subunits: Subunits that occur in the functional organization of macromolecules, usually proteins. 3. Heme: Heme is a prosthetic group containing carbon, nitrogen and hydrogen atoms, with a single Fe2+ ion at the center. 4. Prosthetic group: A tightly bound non – protein chemical compound that is required for the activity of an enzyme. 5. Protoporphyrin IX:A metal-free porphyrin that combines with iron to form the heme of iron-containing proteins. It is made up of four pyrrole rings linked by methene bridges to form a tetrapyrrole ring. Four methyl groups, two vinyl groups, and two propionate side chains are attached. 2 3 4 5

4. Part 1, Step 1 1 Alpha globin gene cluster Chromosome 16 Adult Hemoglobin heterotetramer (a2b2) α1 2 β1 Expressed in fetal Hb (a2g2) Beta globin gene cluster Chromosome 11 3 α2 β2 Zeta 2 Zeta 1 Alpha 2 Alpha 1 5' 3' 4 epsilon gamma beta delta Action Description of the action Audio Narration 5' 3' PLEASE REDRAW ALL FIGURES. First show the structure on top left with its labels. Next show the arrow appearing and the pink region of the figure on right. Next the coloured boxes at the bottom left must appear followed by the arrow and the yellow region of the figure on right as depicted in the animation. Finally show the 2 regular arrows with the text box ‘expressed in fetal Hb’. Hemoglobin is a heterotetramer composed of two alpha and two beta chains. The alpha globin gene locus resides on chromosome 16 with each gene contributing to the synthesis of the alpha globin chain. The beta globin gene locus resides on chromosome 11 and consists of all genes that are expressed from the time of embryonic development of Hb to that of the adult beta globin gene. The globin chains are synthesized by ribosomes in the cytosol. As shown in animation. 5 Source: Biochemistry by Lubert Stryer, 6th edition (ebook)

5. Part 1, Step 2 1 Heme Fe-Protoporphyrin IX Propionate Quaternary structure of Hemoglobin 2 3 Methyl groups α1 β1 Pyrrole rings Vinyl chains 4 α2 β2 Action Description of the action Audio Narration PLEASE REDRAW ALL FIGURES. First show the structure on the left with its labels. Next show the red box appearing in the region indicated which must be zoomed into to show the figure on the right. The labels for these must then appear after the figure has appeared. Every subunit of hemoglobin is bound to a prosthetic group known as heme. This consists of a central iron atom in its ferrous state surrounded by a complex organic ring structure known as protoporphyrin. The heme group is essential for the oxygen binding property of hemoglobin. The iron atom forms six coordination bonds, four of which are to the nitrogen atom of porphyrin rings, one to a His side chain in the globin subunit and the other being the binding site for oxygen. Iron in its Fe3+ state does not bind to oxygen. As shown in animation. 5 Source: Biochemistry by Lubert Stryer, 6th edition (ebook); Biochemistry by A.L.Lehninger, 4th edition (ebook)

6. Master Layout (Part 2) 1 This animation consists of 5 parts: Part 1 – Structure of hemoglobin Part 2 – Oxygen binding & structural changes Part 3 – Factors affecting oxygen binding Part 4 – Hemoglobin disorders Part 5 – Comparative study of hemoglobin & myoglobin 15o 2 α1 β1 β1 α1 Oxygen binding 3 α2 α2 β2 β2 4 R state oxyhemoglobin T state deoxyhemoglobin O2 O2 O2 O2 5 Source: Biochemistry by Lubert Stryer, 6th edition (ebook); Biochemistry by A.L.Lehninger, 4th edition (ebook)

7. Definitions of the components:Part 2 – Oxygen binding & structural changes 1 1. Cooperative binding: It is a form of allosteric binding in which ligand binding to macromolecules having more than one binding site is carried out in a cooperative manner such that binding of ligand at one site increases the affinity of another site for the ligand. In tetrameric hemoglobin, binding of first oxygen molecule to one subunit brings about structural changes which in turn positively influences the binding of the remaining subunits to oxygen. 2. Models for oxygen binding to Hb: Two models have been proposed by different groups of scientists to explain the binding of oxygen to hemoglobin. These are the concerted and sequential models: a) Concerted model: The first model proposed by Monod, Wyman and Changeux, also known as the MWC model, assumes that each subunit can exist in at least two conformational states and hypothesizes that all subunits make the transition from one state to the other simultaneously. According to this model, each subunit of a cooperatively binding protein is functionally identical. Binding of ligand can occur with either conformation but with varying degrees of affinity for each. Binding of ligand to a low affinity state makes the transition to the high affinity state more likely. b) Sequential model: The second model, proposed by Daniel Koshland in 1966, postulates that binding of a ligand to one subunit can induce conformational changes in the other subunits. Unlike the concerted model, it does not state that all subunits must exhibittransition from one state to the other simultaneously, thereby making a larger number of intermediate states more likely. 2 3 4 5

8. Definitions of the components: Part 2 – Oxygen binding & structural changes 1 3. Oxyhemoglobin: When all subunits of hemoglobin are bound to oxygen, it is known as oxyhemoglobin and it transports oxygen to the various tissues of the body. 4. Deoxyhemoglobin: Hemoglobin in oxygen unloaded form is called deoxyhemoglobin. 5. T state:T stands for the tense state. It is one of the two quaternary forms of hemoglobin that predominates in absence of oxygen. It has a lower affinity for substrates and, hence, lower catalytic activity. 6. R state:R stands for relaxed state. One of the two quaternary forms of hemoglobin that predominates when oxygen is bound. . It has a higher affinity for substrates and, hence, higher catalytic activity. 7. Distal histidine: Distal histidine in vertebrate hemoglobins plays an important role in oxygen binding and has been strongly conserved during evolution. It is considered to be important in fine-tuning the ligand affinities of hemoglobin. 8. Proximal histidine:The heme in hemoglobin is held in the cleft both by hydrophobic interactions and by a covalent bond between the iron and a nitrogen atom of a nearby histidine side chain. This histidine is referred to as the proximal histidine. 9. Sigmoidal plot: The binding of oxygen to hemoglobin displays marked sigmoidal behaviour, which is indicative of cooperation between subunits. The binding of first oxygen causes a conformational change in the other binding sites that makes it easier for oxygen to bind there. This explains the initial up-swing in the sigmoidal curve. The "leveling out" at the top of the curve is caused by saturation of the hemoglobin-oxygen binding sites. 2 3 4 5

9. Part 2, Step 1 1 Models of cooperative binding: Concerted (MWC) model O2 O2 O2 O2 O2 O2 O2 O2 O2 O2 Low affinity 2 3 O2 O2 O2 O2 O2 O2 O2 O2 O2 O2 High affinity 4 Description of the action Action Audio Narration Hemoglobin binds four molecules of oxygen per tetramer, one per heme, in a cooperative manner. The first model for cooperative binding, proposed by Monod, Wyman and Changeux, also known as the MWC model, assumes that each subunit can exist in at least two conformational states with all subunits making the transition from one state to the other simultaneously. Each subunit of a cooperatively binding protein is functionally identical and binding of ligand can occur in either conformation but with varying degrees of affinity for each. Binding of ligand to a low affinity state makes the transition to the high affinity state more likely. As shown in Animation. PLEASE REDRAW ALL FIGURES. First show the four blank ovals and the four blank rectangles. Next the ligand ‘O2 ‘should appear in the first oval and the colour should change. Then the down arrow should appear followed by the four rectangles. Next ligand should appear in the first rectangle and the colour should change. Similarly ligand should occupy the next oval and the colour should change and so on till all the ovals and rectangles are occupied by the ligand as shown in animation. 5 Source: Biochemistry by A.L.Lehninger, 4th edition (ebook)

10. Part 2, Step 2 1 Models of cooperative binding: Sequential model O2 O2 O2 O2 O2 O2 O2 O2 O2 O2 2 K2 K3 K4 K1 3 Low affinity High affinity 4 Description of the action Action Audio Narration The second model for cooperative binding of oxygen to hemoglobin, proposed by Daniel Koshland in 1966, postulates that binding of a ligand to one subunit can induce conformational changes in the other subunits. However, unlike the concerted model, it does not state that all subunits must transition from one state to the other simultaneously. Any conformational change brought about in one subunit enhances the likelihood of a similar change as well as binding of a ligand in the neighboring subunit. A larger number of intermediate states are therefore more likely in the sequential model. As shown in Animation. PLEASE REDRAW ALL FIGURES. First show the blank circles and rectangles in the top row appearing column-wise one after another. Next the arrows below must appear and the same must appear for the 2nd row. Then the figures in the 3rd row must appear sequentially and so on until all the figures have been displayed. 5 Source: Biochemistry by Lubert Stryer, 6th edition (ebook)

11. Part 2, Step 3 1 Binding of oxygen to hemoglobin: Structural changes Iron atom located slightly outside plane of porphyrin ring 2 0.4 Ao Porphyrin Iron α1 β1 His 3 β2 α2 T state deoxyhemoglobin 4 Description of the action Action Audio Narration As shown in Animation. Two major conformations of Hb have been deduced by X-ray analysis – the T state which is stabilized in the absence of oxygen and the R state which is relatively more stable in the presence of oxygen. The pair of identical ab dimers of Hb are linked by several ion pairs at the interface that stabilize it in its deoxy state. Many of these interactions are disrupted upon binding to oxygen and new ones are formed instead. The porphyrin ring in the T state is found to be slightly puckered, thereby causing the iron atom to lie out of plane and protrude onto the proximal histidine. PLEASE REDRAW ALL FIGURES. First show the figure on the left with its labels. Next, show the green box appearing which must be zoomed into to show the figure on the right. The blue arrow must then appear which must continuously flicker and the text box on top must appear. 5 Source: Biochemistry by Lubert Stryer, 6th edition (ebook);

12. Part 2, Step 4 1 Binding of oxygen to hemoglobin: Structural changes Iron moves into plane of heme & pulls proximal histidine along with it. β1 Bound O2 α1 2 Porphyrin Iron 3 His α2 β2 R state oxyhemoglobin 4 Description of the action Action Audio Narration Upon binding to oxygen, one ab pair of subunits rotates with respect to the other by around 15o. Several interactions at the ab interaface are therefore disrupted and new ones formed. As Max Perutz rightly postulated, there are changes in the position of many key amino acid residues upon oxygenation. Binding of oxygen causes the iron atom to move back into the plane of the porphyrin ring thereby pulling the proximal histidine along with it. Once the transition from T state to R state takes place in one subunit, the remaining subunits also undergo the same transition more readily, thereby favouring the cooperative binding to oxygen. As shown in Animation. PLEASE REDRAW ALL FIGURES. First show the figure on the left with its labels. Next, show the green box appearing which must be zoomed into to show the figure on the right. The blue arrow must then appear which must continuously flicker and the text box on top must appear. 5 Source: Biochemistry by Lubert Stryer, 6th edition (ebook);

13. Part 2, Step 5 1 Effect of cooperative binding Capacity for oxygen delivery to tissues is greatly increased due to cooperative binding of hemoglobin Lungs Proten without cooperativity Hb 2 Oxygen uptake 3 Oxygen release – 66% Oxygen release – 38% Tissues 4 Description of the action Action Audio Narration PLEASE REDRAW ALL FIGURES. First show the image of ‘lungs’, ‘tissues’ and the blue squares marked ‘Hb’. Small white circles must then enter the blue squares with the label ‘oxygen uptake’. These must then move down to the ‘tissues’ and majority of the circles must be released onto the tissues. When this happens, the red curve in the graph must appear. Next the green squares must appear and fewer number of white circles must be taken up onto these squares. Again, these must move down and only few (~38%) of the circles must be released onto the tissues. This is followed by appearance of the blue curve in the graph and then the dialogue box above. Cooperative binding of oxygen to hemoglobin allows efficient transfer of oxygen from lungs to tissues. The high partial pressure of oxygen in lungs allows Hb to be saturated upto 98% due to the cooperative nature while saturation level in tissues drops to 32% due to lower partial pressure. This allows 66% of the oxygen taken up to be released. In case of proteins showing no cooperativity, however, the maximum amount of oxygen that can be delivered under similar conditions is only around 38% due to less uptake and relatively less release. This cooperative binding nature leads to a sigmoidal binding curve for Hb allowing it to deliver 1.7 times more oxygen compared to non-cooperative proteins. As shown in Animation. 5 Source: Biochemistry by Lubert Stryer, 6th edition (ebook);

14. Master Layout (Part 3) 1 This animation consists of 5 parts: Part 1 – Structure of hemoglobin Part 2 – Oxygen binding & structural changes Part 3 – Factors affecting oxygen binding Part 4 – Hemoglobin disorders Part 5 – Comparative study of hemoglobin & myoglobin BOHR EFFECT 2 Effect of 2,3-bisphosphoglycerate (BPG) Effect of pH & CO2 O2 O2 O2 O2 Fractional saturation OxyHb 3 2,3-BPG 4 DeoxyHb Oxygen partial pressure 5 Source: Biochemistry by A.L.Lehninger, 4th edition (ebook)

15. Definitions of the components:Part 3 – Factors affecting oxygen binding 1 1. Bohr Effect: The effect of pH and CO2 concentration on the binding and release of oxygen by hemoglobin is called the Bohr effect. Lowering the pH and raising the partial pressure of carbon dioxide results in the release of O2 from oxyhemoglobin. 2. Effect of 2,3-bisphosphoglycerate: 2,3-bisphosphoglycerate is a highly anionic compound that is present in RBCs at around the same concentration as Hb. 2,3-BPG binds to a central pocket of the T form of Hb tetramer and stabilizes it by interacting with three positively charged amino acids on each β-chain. 3. Fractional saturation: It is the fraction of active sites that are bound to the substrate and is directly proportional to reaction velocity. 4. Oxygen partial pressure: It is the partial pressure of oxygen in the gas phase above the solution. 2 3 4 5

16. Part 3, Step 1 1 Bohr effect Raising partial pressure of carbon dioxide O2 O2 O2 O2 Lowering pH O2 O2 O2 O2 Deoxyhemoglobin Oxyhemoglobin 2 Exhaled Peripheral tissues Lungs 2CO2 + 2H2O Carbonic anhydrase 2H2CO3 3 Hb + 4O2 O2 2HCO3- + 2H+ 2H+ + 2HCO3- 2H2CO3 Carbonic anhydrase Hb + 2H+ (buffer) 4O2 2CO2 + 2H2O 4 Action Description of the action Audio Narration The effect of pH and CO2 concentration on the binding and release of oxygen by hemoglobin is called the Bohr effect. Lowering the pH and raising the partial pressure of carbon dioxide results in the release of O2 from oxyhemoglobin. In peripheral tissues, CO2 released from Krebs cycle and other cellular processes combines with water to form carbonic acid, which dissociates into protons and bicarbonate ions. Hb which has just released its bound oxygen into the tissues acts as a buffer by binding protons and delivering them to the lungs. In the lungs, the uptake of oxygen by hemoglobin releases protons that combine with bicarbonate ion, forming carbonic acid, which when dehydrated by carbonic anhydrase becomes carbon dioxide, which is then exhaled. PLEASE REDRAW ALL FIGURES. First show the four circles on left top with ‘O2 ‘and its label. Next show the arrow and the text followed by the four circles on the right with O2 leaving them. Next, show the two coloured boxes & their labels on top. The reaction sequence must then appear as shown in animation. As shown in animation. 5 Source : Harper's Biochemistry 26th ed

17. Part 3, Step 2 1 Chemical basis for Bohr effect At lower pH, His 146 is protonated which favours the deoxyHB conformation thereby leading to release of O2 Fractional saturation 2 3 Oxygen partial pressure Carbamate 4 Action Description of the action Audio Narration The chemical basis for the effect of pH has been found to lie in the interactions of the various side chains in hemoglobin. In deoxyHb, the b-His 146 forms a salt bridge with a lysine residue in the a subunit. This interaction is however not possible when the His residue is deprotonated, which occurs at high pH. Upon lowering the pH, protonation of the His residue brings about salt bridge formation, thereby favouring the deoxy form and leading to release of bound O2. CO2 reacts with the terminal amino groups forming negatively charged carbamate groups, thereby stabilizing the deoxyHb form. PLEASE REDRAW ALL FIGURES. In the figure on left, first show on the colored circles with their bonds joined. The circle with the label ‘added proton’ must appear after that and the dotted line must be formed between the white circle and the pink circle and a thick line with the blue circle on the left. Once that happens, the graph must be shown followed by the dialogue box with text. As shown in animation. 5 Source: Biochemistry by Lubert Stryer, 6th edition (ebook); Biochemistry by A.L.Lehninger, 4th edition (ebook)

18. Part 3, Step 3: 1 Effect of 2,3-bisphosphoglycerate (BPG) 2,3-BPG bound Hb His 143 Lys 82 His 2 b1 subunit 2 N 2,3-BPG N b2 subunit 3 Lys 82 His 2 2,3-BPG His 143 O2 O2 O2 O2 Deoxyhemoglobin Oxyhemoglobin 4 Action Description of the action Audio Narration PLEASE REDRAW ALL FIGURES. First show the figure on top left followed by the red box. This area must be zoomed into to show the figure to its right. Then show the four coloured circles at the bottom with the label ‘oxyhemoglobin’. The small blue circle must then bind to the centre of the bigger orange circles. Once this happens, The O2 labels must leave and the colour of the circ le must change from orange to white with the label then showing ‘deoxyhemoglobin’. 2,3-bisphosphoglycerate is a highly anionic compound that is present in RBCs at around the same concentration as Hb. 2,3-BPG binds to a central pocket of the T form of Hb tetramer and stabilizes it by interacting with three positively charged amino acids on each β-chain. Transition from T to R state requires bonds to be broken between Hb and 2,3-BPG. This enhances the oxygen releasing capacity of Hb, without which it would be an extremely inefficient transporter molecule. As shown in animation. 5 Source: Biochemistry by Lubert Stryer, 6th edition (ebook);

19. Master Layout (Part 4) 1 This animation consists of 5 parts: Part 1 – Structure of hemoglobin Part 2 – Oxygen binding & structural changes Part 3 – Factors affecting oxygen binding Part 4 – Hemoglobin disorders Part 5 – Comparative study of hemoglobin & myoglobin 2 SICKLE CELL ANEMIA Thalassemia 3 Normal red blood cell Sickled red blood cell α thalassemia β thalassemia 4 5

20. Definitions of the components:Part 4 – Hemoglobin disorders 1 1. Sickle cell anemia: Sickle-cell anemia is a genetic disease in which an individual has inherited the allele for sickle-cell hemoglobin from both parents characterized by abnormal, rigid, sickle shape (HbS) as compared to the normal flexible biconcave disk shaped red blood cells (HbA). It results from a single amino acid substitution, a Val instead of a Glu residue at position 6 in the two β chains. As a result of this change, deoxyhemoglobin S has a hydrophobic patch on its surface, whichcauses the molecules to aggregate into strands that align to form insoluble fibres. Sickle-cell disease may lead to various acute and chronic complications, several of which are potentially lethal. 2. Thalassemia: This is another inherited genetic disorder due to deletions or mutations in the globin genes which results in abnormalities and deficiencies in α-globin synthesis. Signs and symptoms of thalassemias are due to lack of oxygen in the bloodstream. This occurs because the body doesn't make enough healthy red blood cells and hemoglobin. The severity of symptoms depends on the severity of the disorder. 3. Point mutation: A type of mutation resulting from substitution of a single nucleotide base with another. 2 3 4 5

21. Part 4, Step 1: 1 Sickle cell anemia Sequence in normal hemoglobin (Hb A) 2 Nucleotide CTG ACT CCT GAGGAG AAG TCT Amino acid Leu Thr Pro GluGlu Lys Ser Normal red blood cells (HbA) 3 Sequence in mutant hemoglobin (Hb S) Nucleotide T CTG ACT CCT G GGAG AAG TCT A Amino acid Leu Thr Pro Glu Lys Ser Val Glu Sickled red blood cells (HbS) 4 Action Description of the action Audio Narration PLEASE REDRAW ALL FIGURES. First show the figure with ‘normal red cells’ on the right top which must be zoomed into to show the sequences shown in the box as depicted in animation. Next, the image for ‘sickled red blood cells’ must be shown which must be zoomed into and the green sequences on the left must be shown. The ‘A’ shown in red must disappear and be replaced by ‘T’. Similarly in the sequences below, ‘Glu’ must diappear and be replaced by ‘Val’ as shown in animation. A large number of mutations have been described in the globin genes. The mutation causing sickle cell anemia is a single nucleotide substitution of A to T in the codon for amino acid 6 of the b chain. This change converts a glutamic acid residue to valine in the corresponding amino acid sequence. Replacement of the Glu residue by Val creates a “sticky” hydrophobic contact point at position 6 of the β chain.These sticky spots cause deoxyHbS molecules to associate abnormally with each other leading to clumping of the cells. Their oxygen carrying capacity is greatly reduced and these patients require frequent transfusions. As shown in animation. 5 Source: www.ntic.uson.mx

22. Part 4, Step 2: 1 β- Thalassemia Splice site Point mutation resulting in abnormality in β globin synthesis Normal 5’ C C T A T T G G T C T A T T T T C C A C C C T T A G G C T G 3’ β-Thalassemia 5’ C C T A T T G T C T A T T T T C C A C C C T T A G G C T G 3’ G A 2 Splice site α- Thalassemia 3 Deletion mutation resulting in abnormality in α globin synthesis Zeta 2 Zeta 1 Alpha 2 Alpha 1 3' 5' Description of the action Action Audio Narration PLEASE REDRAW ALL FIGURES. First show the sequence labeled as ‘normal’ followed by the sequence labeled as β-Thalassemia. Then the top right braces and its text should appear.Next the red letter G shoild be replaced by letter A in the nucleotide sequence labeled as β-Thalassemia. Then the bottom right braces and its text should appear. Then the text on right should pop out. Next thre bottom figure should be shown. Then the red block should dissapear followed by the text on right. 4 Thalassemia are the result of abnormalities in hemoglobin synthesis.Deficiencies in β-globin synthesis result in the β-thalassemias. Mutation of a single base from G to A in an intron of the β-globin gene generates a new splice site. The resulting mRNA contains a stop codon further upstream and leads to premature translation termination thereby producing aberrant protein.Deficiencies in α-globin synthesis due to inactivation of one or all the four α-globin genes results in the α-thalassemias. As shown in animation. 5 Source: www.sickle.bwh.harvard.edu

23. Master Layout (Part 5) 1 This animation consists of 5 parts: Part 1 – Structure of hemoglobin Part 2 – Oxygen binding & structural changes Part 3 – Factors affecting oxygen binding Part 4 – Hemoglobin disorders Part 5 – Comparative study of hemoglobin & myoglobin Heme group 2 Iron atom α1 3 β1 α2 β2 Hemoglobin Myoglobin 4 5 Source: Biochemistry by Lubert Stryer, 6th edition (ebook);

24. Definitions of the components:Part 5 – Comparative study of hemoglobin & myoglobin 1 1. Myoglobin (Mb): Myoglobin is a globular protein having a single polypeptide chain consisting of eight alpha helices linked by short polypeptide segments, with a total of 153 amino acid residues. It is found in muscle tissues of most mammals and plays a role in oxygen binding. Myoglobin resembles the alpha subunit of hemoglobin and like hemoglobin, it consists of a central heme group which enables it to bind oxygen. Myoglobin was the first protein to have its X-ray crystallography structure determined in 1959 by John Kendrew. 2 3 4 5

25. Part 5, Step 1: 1 Structure of Myoglobin – determined by X-ray crystallography Detector Electron density map of myoglobin 2 X-ray beam X-ray source Myoglobin crystals X-ray diffraction 3 Iron atom Pyrrole rings Eight alpha helices joined by turns 4 Action Description of the action Audio Narration X-ray crystallography is a very useful visualization technique that facilitates the determination of three-dimensional coordinates of atoms in a protein. Myoglobin was the first protein whose structure was determined by X-ray crystallography studies. When a beam of X-ray was passed through the crystals of myoglobin, some part of the beam was found to pass straight through while the others were scattered in different directions. These scattered beams were detected by means of an X-ray film which, after several spot intensity calculations, provided an electron density map of the protein. The protein was found to consist of a single polypeptide chain having eight alpha helices along with a heme group in the centre similar to hemoglobin. PLEASE REDRAW ALL FIGURES. First show the figure marked ‘myoglobin crystals’, ‘X-ray source’ and ‘detector’. Next show a beam of light coming out from the source and passing through on of the crystals where it must get split into several beams as shown and then strike the detector. Once this happens, the figure shown on right must appear after which the green regions must be highlighted with labels followed by the arrow mark and the figure on left. As shown in animation. 5 Source: Modified from Biochemistry by Lubert Stryer, 6th edition (ebook);

26. Part 5, Step 2: 1 Structural similarity between alpha chain of Hb and Mb Structural homology Myoglobin a-subunit Hemoglobin 2 Sequence homology 3 Identical residues Conserved substitution 4 Action Description of the action Audio Narration Myoglobin, found largely in muscle tissues, has been found to be structurally similar to the alpha subunit of hemoglobin. The alpha helix arrangement of both proteins has been found to be the same with the recurring structure being known as the globin fold. The hemoglobin chain having 141 amino acids and myoglobin having 153 residues have also been found to have very high sequence homology. Despite the similarities, myoglobin functions largely as an oxygen binding protein that stores a reserve supply of oxygen in muscle tissues while hemoglobin serves to transport oxygen. PLEASE REDRAW ALL FIGURES. First show the blue and red structure on the left & right. Next show the double headed arrow appearing which must flicker until the label ‘structural homology’ is highlighted as depicted. Next, show the arrows appearing and the box below with the orange and yellow highlighted regions & the corresponding labels. Please ensure that this is redrawn with appropriate alignment as shown. As shown in animation. 5 Source: Modified from Biochemistry by Lubert Stryer, 6th edition (ebook);

27. Part 5, Step 3: 1 Oxygen binding curve of myoglobin O2 O2 O2 O2 O2 Myoglobin acts as a useful reserve supply of oxygen in muscle tissues but uses only 7% of its oxygen carrying capacity. All sites filled 2 Fractional saturation 1.0 0.5 3 P1/2 = 2 torr 0 25 50 75 100 Myoglobin pO2 (torr) All sites empty 4 Action Audio Narration Description of the action Myoglobin binds strongly to oxygen and acts as an oxygen storage protein rather than a transporter. It shows 50% saturation at a pressure as low as 2 torr and gets saturated even under low oxygen pressure conditions that prevail in the muscle. Myoglobin can use only 7% of the oxygen carrying capacity as opposed to hemoglobin which can utilize nearly 90% of the carrying capacity. Unlike hemoglobin, which has a sigmoidal oxygen binding curve, myoglobin has a hyperbolic curve indicating that it binds to oxygen irrespective of the surrounding partial pressure of oxygen in the tissues. It is this property that allows sea mammals such as whales that have very high amounts of myoglobin in their muscle to remain underwater for long periods of time. PLEASE REDRAW ALL FIGURES. First show the figure on right and the graph axes on the left with the labels. Next, show the violet oxygen molecules binding to the ‘myoglobin’ structure. As the molecules bind, the green curve of the graph must appear gradually. Finally the labels on the graph must appear followed by the text on top. As shown in animation. 5 Source: Modified from Biochemistry by Lubert Stryer, 6th edition (ebook);

28. Interactivity option 1:Step No: 1 1 2,3-BPG has been found to bind readily to adult hemoglobin but not to fetal hemoglobin which has the composition, a2g2 (as shown in animation). The g subunit has less positive charge compared to the adult b subunit, due to which the negatively charged 2,3-BPG does not bind to it. This phenomenon is believed to be of evolutionary significance for which of the following reasons? 2 α α α α α α α α β β β β 2,3-BPG γ γ γ γ BPG bound maternal Hb Adult maternal Hb – a2b2 3 4 Fetal Hb – a2g2 Fetal Hb – a2g2 Results Interacativity Type Options Boundary/limits User has to choose one of the four options after the animation and graph have been displayed. If a, b or d are chosen, they must turn red. User has to choose one of the four options. If a, b or d are chosen, they must turn red with the remark ‘wrong answer’. If user chooses (c ), it must turn green with the remark ‘right answer’. 5 Choose the correct option.

29. Interactivity option 1:Step No: 2 1.0 Fetal red cells 0.8 Maternal red cells 0.7 Fractional saturation 0.6 0.4 0.2 100 50 a) Allows proper development of the fetus. Oxygen partial pressure b) To minimize the oxygen saturation of the fetus. c) To allow for better oxygen saturation and transfer of oxygen from mother to fetus. d) To prevent the toxic effects of 2,3-BPG from entering the fetus.

30. Interactivity option 2:Step No: 1 1 Drag and drop the statements given below into their correct column headings. HEMOGLOBIN MYOGLOBIN 90% oxygen carrying capacity Red blood cells 2 Muscles 7% oxygen carrying capacity Oxygen storage protein 1 polypeptide chain 3 Oxygen transport protein 4 polypeptide chains 4 Results Interacativity Type Options The red statements must come under the ‘hemoglobin’ column and the green under the ‘myoglobin’ column as shown in animation.. User must drag and drop the statements given on the sides into their correct columns. Every time the user drags it correctly, a green tick must appear. If user drags it under the wrong column a cross must appear and the statement must return to its original position. 5 Drag & drop.

31. Questionnaire 1 1. Which of the following is the major form of hemoglobin produced in red blood cells during normal adult life? Answers: a) a2b2 b) a2g2 c) z2 e 2d)‏a2e2 2. All of the following factors influence hemoglobin dissociation curve except ? Answers: a) pHb) CO2 tensionc) Temperatured)‏2,3 BPG levels 3. The cause of sicke cell anemia is : Answers: a) a deletion of the beta globin gene promoter b) a missense mutation in the coding region of the beta globin genec) a nonsense mutation in the coding region of the beta globin gene d)‏the increased production of the alpha globin gene due to a duplication 4. Bohr effect explains the effect of following on the binding and release of oxygen by hemoglobin: Answers: a) CO2 b) pH c) 2,3, BPG d)‏ both a and b 5. What is the heme group? Answers: a) lipid b) tetrapyrrole c) protein d)‏ steroid 2 3 4 5

32. Links for further reading Books: Biochemistry by Lubert Stryer et al., 6th edition (ebook) Biochemistry by A.L.Lehninger et al., 4th edition Biochemistry by Harper, 26th edition (ebook) Research papers: • The crystal structure of a tetrameric hemoglobin in a partial hemichrome stateAntonio Riccio by  Luigi Vitagliano, Guido di Prisco,Adriana Zagari and Lelio Mazzarella