Fluctuations between stabilizing and destabilizing electrostatic contributions of ion pairs in conformers of the c-Myc-Max leucine zipper

Proteins: Structure, Function and Genetics

Volumn 41, Issue 4, 2000, Pages 485-497

  Kumar, Sandeep ^a   Nussinov, Ruth ^a,b,c  

^a NATIONAL CANCER INSTITUTE   (United States)

^b TEL AVIV UNIVERSITY   (Israel)

^c SAIC FREDERICK INC   (United States)

Author keywords

Coiled coil; Energy landscape; Ensemble; NMR; Solution

Indexed keywords

LEUCINE ZIPPER PROTEIN; MYC PROTEIN;

ARTICLE; CALCULATION; ELECTRICITY; ENERGY; GEOMETRY; NUCLEAR MAGNETIC RESONANCE; PRIORITY JOURNAL; PROTEIN CONFORMATION; PROTEIN INTERACTION; PROTEIN STABILITY;

BASIC HELIX-LOOP-HELIX LEUCINE ZIPPER TRANSCRIPTION FACTORS; BASIC-LEUCINE ZIPPER TRANSCRIPTION FACTORS; DNA-BINDING PROTEINS; ELECTROSTATICS; HUMANS; IONS; LEUCINE ZIPPERS; MODELS, MOLECULAR; MOTION; NUCLEAR MAGNETIC RESONANCE, BIOMOLECULAR; PROTEIN STRUCTURE, SECONDARY; PROTEIN STRUCTURE, TERTIARY; PROTO-ONCOGENE PROTEINS C-MYC; THERMODYNAMICS; TRANSCRIPTION FACTORS;

EID: 0034561026     PISSN: 08873585     EISSN: None     Source Type: Journal    
DOI: 10.1002/1097-0134(20001201)41:4<485::AID-PROT60>3.0.CO;2-E     Document Type: Article

References (54)

1. Co-operative interactions during protein folding
2. Contribution of a hydrogen bond/salt bridge network to the stability of secondary and tertiary structures in lambda repressor
3. Do salt bridges stabilize proteins? A continuum electrostatic analysis
4. Protein binding versus protein folding: The role of hydrophilic bridges in protein associations
5. Salt bridge interactions: Stability of ionic and neutral complexes in the gas phase, in solution and in proteins
6. Salt bridge stability in monomeric proteins
7. Increasing protein stability by altering long range coulombic interactions
8. Electrostatic strengths of salt bridges in thermophilic and mesophilic glutamate dehydrogenase monomers
9. Ion-pairs in proteins
10. Folding funnels and binding mechanisms
11. Folding funnels, binding funnels and protein function
12. Folding and binding cascades: Shifts in energy landscapes
13. Folding funnels and conformational transitions via hinge-bending motions
14. Folding and binding cascades: Dynamic landscapes and population shifts
15. Analysis methods for comparison of multiple molecular dynamics trajectories: Applications to protein unfolding pathways and denatured ensembles
16. Exploring the dynamic information content of a protein NMR structure: Comparison of a molecular dynamics simulation with the NMR and X-ray structures of Escherichia coli ribonuclease H1
17. Conformational analysis of protein structures derived from NMR data
18. Essential spaces defined by NMR structure ensembles and molecular dynamics simulation show significant overlap
19. Redistribution and loss of side chain entropy upon formation of a calmodulin-peptide complex
20. 1H-NMR solution structure of the c-Myc-Max heterodimeric leucine zipper
21. The protein data bank: A computer based archival file for macromolecular structures
22. X-ray structure of the GCN4 leucine zipper, a two stranded, parallel coiled coil
23. The GCN4 basic region leucine zipper binds DNA as a dimer of uninterrupted helices: Crystal structure of the protein-DNA complex
24. Crystal structure of the heterodimeric bZIP transcription factor c-Fos-c-Jun bound to DNA
25. Crystal structure of a designed, thermostable, heterotrimeric coiled coil
26. A switch between two-, three- and four-stranded coiled coils in GCN4 leucine zipper mutants
27. Packing and hydrophobicity effects on protein folding and stability: Effects of beta-branched amino acids, valine and isoleucine, on the formation and stability of two-stranded α-helical coiled coils/leucine zippers
28. Oligomerization properties of GCN4 leucine zipper e and g position mutants
29. De novo design of a model peptide sequence to examine the effects of single amino acid substitutions in the hydrophobic core on both stability and oligomerization state of coiled-coils
30. Measurement of interhelical electrostatic interactions in the GCN4 leucine zipper
31. Interhelical salt bridges, coiled-coil stability, and specificity of dimerization
32. The role of interhelical ionic interactions in controlling protein folding and stability. De novo designed synthetic two-stranded α-helical coiled-coils
33. Inter-helical interactions in the leucine zipper coiled coil dimer: pH and salt dependence of coupling energy between charged amino acids
34. Design of heterotetrameric coiled coils: Evidence for increased stabilization by Glu(-)-Lys(+) ion pair interactions
35. Surface salt bridges stabilize the GCN4 leucine zipper
36. Electrostatic interactions control the parallel and antiparallel orientation of α-helical chains in two-stranded α helical coiled coils
37. Orientation, positional additivity, and oligomerization-state effects of interhelical ion pairs in α-helical coiled-coils
38. A buried polar interaction imparts structural uniqueness in a designed heterodimeric coiled coil
39. The interpretation of protein structures. Estimation of static accessibility
40. Hydrophobic folding units derived from dissimilar monomer structures and their interactions
41. Structural and sequence characteristics of long α-helices in globular proteins
42. Geometrical and sequence characteristics of α-helices in globular proteins
43. HELANAL-A program to characterize α-helix geometry in proteins
44. Exceptionally stable salt bridges in cytochrome P450cam have functional roles
45. Electrostatic contributions to the stability of hyperthermophilic proteins
46. Are buried salt bridges important for protein stability and conformational specificity?
47. Comparison of protein structures determined by NMR in solution and by X-ray diffraction in single crystals
48. Backbone and side chain dynamics of uncomplexed human adipocyte and muscle fatty acid-binding proteins
49. Preferential heterodimeric parallel coiled coil formation by synthetic Max and c-Myc leucine zippers: A description of putative electrostatic interactions responsible for the specificity of heterodimerization
50. Interhelical salt bridges, coiled-coil stability, and specificity of dimerization
51. A systematic study of the vibrational free energies of polypeptides in folded and random states