Refined solution structures of the Escherichia coli trp holo- and aporepressor.Zhao, D., Arrowsmith, C.H., Jia, X., Jardetzky, O.
(1993) J.Mol.Biol. 229: 735-746
- PubMed: 8433368
- DOI: 10.1006/jmbi.1993.1076
- Primary Citation of Related Structures:
- PubMed Abstract:
- Sequence-Specific 1H NMR Assignments and Secondary Structure in Solution of Escherichia Coli Trp Repressor
Arrowsmith, C.H.,Pachter, R.,Altman, R.B.,Iyer, S.B.,Jardetzky, O.
(1990) Biochemistry 29: 6332
- Sequential Simulated Annealing: An Efficient Procedure for Structural Refinement Based on NMR Constraints
Zhao, D.,Jardetzky, O.
(1993) J.Phys.Chem. 97: 3007
- The Solution Structures of the Trp Repressor-Operator DNA Complex
Zhang, H.,Zhao, D.,Revington, M.,Lee, W.,Jia, X.,Arrowsmith, C.,Jardetzky, O.
(1994) J.Mol.Biol. 238: 592
- The Solution Structures of Escherichia Coli Trp Repressor and Trp Aporepressor at an Intermediate Resolution
Arrowsmith, C.,Pachter, R.,Altman, R.,Jardetzky, O.
(1991) Eur.J.Biochem. 202: 53
- NMR Assignments for the Amino-Terminal Residues of Trp Repressor and Their Role in DNA Binding
Arrowsmith, C.H.,Carey, J.,Treat-Clemons, L.,Jardetzky, O.
(1989) Biochemistry 28: 3875
The solution structures of the trp-repressor from Escherichia coli in both the liganded (holo-) and unliganded (apo-) form, have been refined by restrained molecular dynamics with simulated annealing using the program XPLOR and additional experimenta ...
The solution structures of the trp-repressor from Escherichia coli in both the liganded (holo-) and unliganded (apo-) form, have been refined by restrained molecular dynamics with simulated annealing using the program XPLOR and additional experimental constraints. The ensemble of refined holorepressor structures have a root-mean-square deviation (r.m.s.d.) of 0.8 A relative to the average structure for the backbone of the dimer core (helices A, B, C, A', B', C') and 2.5 A for the helix-turn-helix DNA-binding domain (helices D and E). The corresponding values for the aporepressor are 0.9 A for the backbone of the ABC-dimer core and 3.2 A for the DE helix-turn-helix. The r.m.s.d. of the average structures from the corresponding crystal structures are 2.3 A for the holorepressor ABC core and 4.2 A for its DE region; 2.3 A for the aporepressor core and 5.5 A for its DE region. The relative disorder of the DNA-binding domain is reflected in a number of experimental parameters including substantially more rapid backbone proton exchange rates, exchange-limited relaxation times and crystallographic B-factors. The stabilizing effect of the L-Trp ligand is evident in these measurements, as it is in the higher precision of the holorepressor structure.
Stanford Magnetic Resonance Laboratory, Stanford University, CA 94305-5055.