The role of N157 of A-ATP synthase subunit B in nucleotide binding and expression, production and structural and mechanistic features of subunits α and ε of Mycobacterium tuberculosis F-ATP synthase
The ATP synthases/ATPases arose from a common ancestor and, therefore, A1AO ATP synthases share properties with the F1FO ATP synthase as present in bacteria, chloroplasts and mitochondria. Although the overall subunit composition and the primary sequence of the major subunits A and B of A1AO ATP syn...
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| Other Authors: | |
| Format: | Thesis |
| Language: | English |
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2016
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| Online Access: | https://hdl.handle.net/10356/67325 |
| _version_ | 1811689604665835520 |
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| author | Sundararaman, Lavanya |
| author2 | Gerhard Gruber |
| author_facet | Gerhard Gruber Sundararaman, Lavanya |
| author_sort | Sundararaman, Lavanya |
| collection | NTU |
| description | The ATP synthases/ATPases arose from a common ancestor and, therefore, A1AO ATP synthases share properties with the F1FO ATP synthase as present in bacteria, chloroplasts and mitochondria. Although the overall subunit composition and the primary sequence of the major subunits A and B of A1AO ATP synthases is fairly different to F1FO ATP synthases, their function similar to F1FO ATP synthase is to synthesize ATP. The proposed subunit stoichiometry of A1 is A3:B3:C:D:F:(EG)2. The integral AO domain contains subunits a and c. Subunit B is a nucleotide binding regulatory subunit. In the present study, the crystal structure for N157T mutant of P-loop of subunit B has been solved to investigate the role of N157 in nucleotide binding. FCS studies of N157T along with the other mutants H156A, N157A and WT-B revealed that the binding affinities of H156A and N156A for ATP are stronger than those of N157T and WT-B. This feature could be attributed to the fact that the size of the binding cavity has increased on substitution with a residue containing a smaller side chain. Similar binding studies with ADP showed that in comparison to the WT-B, the mutants lost the ability to distinguish between the nucleotides, validating the importance of the histidine and asparagine in the P-loop of subunit B. Subunit α of F-ATP synthase, the homologous subunit of subunit B, in spite of being considered as a non-catalytic subunit does bind nucleotides. Interestingly, subunit α of Mycobacterium tuberculosis (Mtα) contains a unique stretch of polar residues in its C-terminus and this is exclusive only to the species belonging to the Mycobacterium genus. Focus has been directed towards obtaining structural information on Mtα. To understand the role of its C-terminus, a chimeric subunit of α from M. tuberculosis and Bacillus PS3 (PS3) has been generated with residues 1-502 of Bacillus PS3 and residues 515-549 of M. tuberculosis. The same chimeric protein of subunit α is generated in a complex of PS3α3β3γ to give αchi3β3γ and is studied to understand the role of the fused C-terminus of Mtα in the ATP hydrolysing activity. The elongated shape and length of Mtα led to the speculation that this is an adaptation to compensate for the shorter length of subunit ε in Mycobacteria. Subunit ε of the F-ATP synthases is essential for the coupling of F1 and FO domains. This subunit exists in two conformations, compact and extended. In the extended state subunit ε functions as the intrinsic inhibitor for ATP hydrolysis and hence importantly, prevents wasteful hydrolysis to conserve cellular ATP levels. The same is observed for the F-ATP synthase of M. tuberculosis, where ATP hydrolysis is reduced during the latent phase in the course of infection of the pathogen. Encouraging ATP hydrolysis to occur will eventually result in cell death and therefore, subunit ε presents an interesting drug target for TB. The disease is difficult to tackle, given the emergence of multi drug resistant strains and hence there is an urgent need for new drug leads and targets. Currently, no information is available on the high resolution structure of subunit ε of M. tuberculosis and much in regard to its mechanistic role needs to be explored. In the present study, I have worked towards obtaining structural information about the subunit ε and have generated constructs with C-terminal truncation to yield a stable protein. For the construct Mtε1-120, a well resolved 2D 15N-1H HSQC spectrum was recorded. Various new age methodologies such as Non- Uniform Sampling and 15N Single amino acid labelling have been employed for 3D NMR and attempts have been invested with crystallisation techniques to garner data to elucidate the structure of this protein. To explore the mechanistic features, chimeric proteins of M. tuberculosis and E. coli (Ec) were generated and have been studied parallel to Ecε and PSε to gain insight into the functioning of Mtε. Mtε on reconstitution with PS3α3β3γ had no effect on the ATPase activity of the PS3α3β3γ complex. Ecε also similarly did not alter the activity of the complex PS3α3β3γ. In contrast, PS3ε on reconstitution increased the ATPase activity of PS3α3β3γ, highlighting the specific interaction required between the subunits α and ε. This observation was further validated by reconstituting αchi3β3γ with Mtε that showed increased ATPase activity. Taken together, these studies demonstrate that the shorter length of Mtε is compensated with the longer Mtα |
| first_indexed | 2024-10-01T05:50:45Z |
| format | Thesis |
| id | ntu-10356/67325 |
| institution | Nanyang Technological University |
| language | English |
| last_indexed | 2024-10-01T05:50:45Z |
| publishDate | 2016 |
| record_format | dspace |
| spelling | ntu-10356/673252023-02-28T18:42:09Z The role of N157 of A-ATP synthase subunit B in nucleotide binding and expression, production and structural and mechanistic features of subunits α and ε of Mycobacterium tuberculosis F-ATP synthase Sundararaman, Lavanya Gerhard Gruber School of Biological Sciences DRNTU::Science::Biological sciences The ATP synthases/ATPases arose from a common ancestor and, therefore, A1AO ATP synthases share properties with the F1FO ATP synthase as present in bacteria, chloroplasts and mitochondria. Although the overall subunit composition and the primary sequence of the major subunits A and B of A1AO ATP synthases is fairly different to F1FO ATP synthases, their function similar to F1FO ATP synthase is to synthesize ATP. The proposed subunit stoichiometry of A1 is A3:B3:C:D:F:(EG)2. The integral AO domain contains subunits a and c. Subunit B is a nucleotide binding regulatory subunit. In the present study, the crystal structure for N157T mutant of P-loop of subunit B has been solved to investigate the role of N157 in nucleotide binding. FCS studies of N157T along with the other mutants H156A, N157A and WT-B revealed that the binding affinities of H156A and N156A for ATP are stronger than those of N157T and WT-B. This feature could be attributed to the fact that the size of the binding cavity has increased on substitution with a residue containing a smaller side chain. Similar binding studies with ADP showed that in comparison to the WT-B, the mutants lost the ability to distinguish between the nucleotides, validating the importance of the histidine and asparagine in the P-loop of subunit B. Subunit α of F-ATP synthase, the homologous subunit of subunit B, in spite of being considered as a non-catalytic subunit does bind nucleotides. Interestingly, subunit α of Mycobacterium tuberculosis (Mtα) contains a unique stretch of polar residues in its C-terminus and this is exclusive only to the species belonging to the Mycobacterium genus. Focus has been directed towards obtaining structural information on Mtα. To understand the role of its C-terminus, a chimeric subunit of α from M. tuberculosis and Bacillus PS3 (PS3) has been generated with residues 1-502 of Bacillus PS3 and residues 515-549 of M. tuberculosis. The same chimeric protein of subunit α is generated in a complex of PS3α3β3γ to give αchi3β3γ and is studied to understand the role of the fused C-terminus of Mtα in the ATP hydrolysing activity. The elongated shape and length of Mtα led to the speculation that this is an adaptation to compensate for the shorter length of subunit ε in Mycobacteria. Subunit ε of the F-ATP synthases is essential for the coupling of F1 and FO domains. This subunit exists in two conformations, compact and extended. In the extended state subunit ε functions as the intrinsic inhibitor for ATP hydrolysis and hence importantly, prevents wasteful hydrolysis to conserve cellular ATP levels. The same is observed for the F-ATP synthase of M. tuberculosis, where ATP hydrolysis is reduced during the latent phase in the course of infection of the pathogen. Encouraging ATP hydrolysis to occur will eventually result in cell death and therefore, subunit ε presents an interesting drug target for TB. The disease is difficult to tackle, given the emergence of multi drug resistant strains and hence there is an urgent need for new drug leads and targets. Currently, no information is available on the high resolution structure of subunit ε of M. tuberculosis and much in regard to its mechanistic role needs to be explored. In the present study, I have worked towards obtaining structural information about the subunit ε and have generated constructs with C-terminal truncation to yield a stable protein. For the construct Mtε1-120, a well resolved 2D 15N-1H HSQC spectrum was recorded. Various new age methodologies such as Non- Uniform Sampling and 15N Single amino acid labelling have been employed for 3D NMR and attempts have been invested with crystallisation techniques to garner data to elucidate the structure of this protein. To explore the mechanistic features, chimeric proteins of M. tuberculosis and E. coli (Ec) were generated and have been studied parallel to Ecε and PSε to gain insight into the functioning of Mtε. Mtε on reconstitution with PS3α3β3γ had no effect on the ATPase activity of the PS3α3β3γ complex. Ecε also similarly did not alter the activity of the complex PS3α3β3γ. In contrast, PS3ε on reconstitution increased the ATPase activity of PS3α3β3γ, highlighting the specific interaction required between the subunits α and ε. This observation was further validated by reconstituting αchi3β3γ with Mtε that showed increased ATPase activity. Taken together, these studies demonstrate that the shorter length of Mtε is compensated with the longer Mtα DOCTOR OF PHILOSOPHY (SBS) 2016-05-15T09:20:29Z 2016-05-15T09:20:29Z 2016 Thesis Sundararaman, L. (2016). The role of N157 of A-ATP synthase subunit B in nucleotide binding and expression, production and structural and mechanistic features of subunits α and ε of Mycobacterium tuberculosis F-ATP synthase. Doctoral thesis, Nanyang Technological University, Singapore. https://hdl.handle.net/10356/67325 10.32657/10356/67325 en 182 p. application/pdf |
| spellingShingle | DRNTU::Science::Biological sciences Sundararaman, Lavanya The role of N157 of A-ATP synthase subunit B in nucleotide binding and expression, production and structural and mechanistic features of subunits α and ε of Mycobacterium tuberculosis F-ATP synthase |
| title | The role of N157 of A-ATP synthase subunit B in nucleotide binding and expression, production and structural and mechanistic features of subunits α and ε of Mycobacterium tuberculosis F-ATP synthase |
| title_full | The role of N157 of A-ATP synthase subunit B in nucleotide binding and expression, production and structural and mechanistic features of subunits α and ε of Mycobacterium tuberculosis F-ATP synthase |
| title_fullStr | The role of N157 of A-ATP synthase subunit B in nucleotide binding and expression, production and structural and mechanistic features of subunits α and ε of Mycobacterium tuberculosis F-ATP synthase |
| title_full_unstemmed | The role of N157 of A-ATP synthase subunit B in nucleotide binding and expression, production and structural and mechanistic features of subunits α and ε of Mycobacterium tuberculosis F-ATP synthase |
| title_short | The role of N157 of A-ATP synthase subunit B in nucleotide binding and expression, production and structural and mechanistic features of subunits α and ε of Mycobacterium tuberculosis F-ATP synthase |
| title_sort | role of n157 of a atp synthase subunit b in nucleotide binding and expression production and structural and mechanistic features of subunits α and ε of mycobacterium tuberculosis f atp synthase |
| topic | DRNTU::Science::Biological sciences |
| url | https://hdl.handle.net/10356/67325 |
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