1994 Fiscal Year Final Research Report Summary
Development of dynamical structural analysis for the active site of multi functional proteins
| Project/Area Number |
04557101
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| Research Category |
Grant-in-Aid for Developmental Scientific Research (B)
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| Allocation Type | Single-year Grants |
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| Research Field |
Physical pharmacy
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| Research Institution | The University of Tokyo |
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Principal Investigator |
SHIMADA Ichio The Univ.of Tokyo, Fac.of Pharm.Sc., Professor, 薬学部, 教授 (70196476)
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| Co-Investigator(Kenkyū-buntansha) |
IMACHI Misako Bruker Japan, Section of Application, Section Chief, 技術部, 技術課長
KATO Koichi The Univ.of Tokyo, Fac.of Pharm.Sc., Assistant Researcher, 薬学部, 助手 (20211849)
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| Project Period (FY) |
1992 – 1994
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| Keywords | NVR / antibody / antigen recognition / protein-protein interaction / dynamical structure |
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| Research Abstract |
In the present study, we develop the NMR method in order to analyze the dynamical structure of the active site of multi-functional proteins. The questions to resolve are
1) How do we selectively obtain the information about the structure of the active site of the multi-functional protein?
2) How do we analyze the dynamical structure of the protein in solution?
The answere are the use of protein which are amino-acid specifically labeled withe stable isotope and the analysis of the relaxation time of the amide group.
The following results are obtained from the present study.
Study by using of anti-dansvl Fv fragment
1) The assignments of the signals originating from the amide group of the main chain of anti-dansyl Fv fragment are established by using the double labeling method along with the sequence-specific resonance assingment.
2) On the basis of the results obtained from the experiment of the binding of the spin labeled hapten, we conclude that the antigen-binding site of the Fv fragment is composed of H1, H3 of the hypervariable loops and N-terminal in VH domain.
3) On the basis of the NOE data, we conclude that the residues which are responsible for the antigen binding are Y96H,Y104H,F27H and V2H.
4) The effect of the antigen binding is transmitted from VH domain to VL domain through the interface of the Fv fragment.
5) In the absence of the antigen, the hyper variable loop which is responsible for the antigen binding take multi-conformations. The exchange rate among the conformations is affected by the antigen binding.
6) From the comparison of the structure of the antigen binding site between in the absence and presence of the antigen, the mechanism of the antigen binding for the Fv fragment is 'induced fit'.
Study by using of anti-dansyl Fab fragment
The method established by using the Fv fragment with the molecular weight of 25K is able to apply to the Fab fragment with the molecular weight of 50K.
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Research Products
(12 results)
