High torsional energy disulfides: Relationship between cross-strand disulfides and right-handed staples

Journal of Bioinformatics and Computational Biology

Volumn 4, Issue 1, 2006, Pages 155-168

  Haworth, Naomi L ^a,b   Feng, Lina L ^a   Wouters, Merridee A ^a,c  

^a VICTOR CHANG CARDIAC RESEARCH INSTITUTE   (Australia)

^b UNIVERSITY OF SYDNEY   (Australia)

^c UNIVERSITY OF NEW SOUTH WALES   (Australia)

Author keywords

Cross strand disulfide; Disulfide; Redox signaling; Right handed staple

Indexed keywords

DISULFIDE;

ARTICLE; BETA SHEET; CONFORMATION; ENERGY; OXIDATION REDUCTION REACTION; PROTEIN MOTIF; PROTEIN SECONDARY STRUCTURE; SURFACE PROPERTY;

COMPUTATIONAL BIOLOGY; COMPUTER SIMULATION; DISULFIDES; MODELS, CHEMICAL; MODELS, MOLECULAR; OXIDATION-REDUCTION; PROTEIN CONFORMATION; PROTEIN STRUCTURE, SECONDARY; PROTEINS; THERMODYNAMICS;

EID: 33645288239     PISSN: 02197200     EISSN: None     Source Type: Journal    
DOI: 10.1142/S0219720006001734     Document Type: Article

References (23)

1. Goulding CW, Sawaya MR, Parseghian A et al., Thiol-disulfide exchange in an immunoglobulin-like fold: Structure of the N-terminal domain of DsbD, Biochemistry 41:6920-7, 2002.
2. Wunderlich M, Glockshuber R, Redox properties of protein disulfide isomerase (DsbA) from Escherichia coli, Protein Sci 2:717-26, 1993.
3. Huber-Wunderlich M, Glockshuber R, A single dipeptide sequence modulates the redox properties of a whole enzyme family, Fold Des 3:161-71, 1998.
4. Lin TY, Kim PS, Urea dependence of thiol-disulfide equilibria in thioredoxin: Confirmation of the linkage relationship and a sensitive assay for structure, Biochemistry 28:5282-7, 1989.
5. Gilbert HF, Molecular and cellular aspects of thiol-disulfide exchange, Adv Enzymol Relat Areas Mol Biol 63:69-172, 1990.
6. Wouters MA, Curmi PM, An analysis of side chain interactions and pair correlations within antiparallel β-sheets: The differences between backbone hydrogen-bonded and non-hydrogen-bonded residue pairs, Proteins 22:119-31, 1995.
7. Richardson JS, The anatomy and taxonomy of protein structure, Adv Protein Chem 34:167-339, 1981.
8. Matthias LJ, Yam PTW, Jiang X-M et al., Disulphide exchange in domain 2 of CD4 is required for entry of the Human Immunodeficiency Virus Type 1, Nature Immunol 3:727-732, 2002.
9. Hanson GT, Aggeler R, Oglesbe D et al., Investigating mitochondrial redox potential with redox-sensitive green fluorescent protein indicators, J Biol Chem 279(13): 13044-53, 2004.
10. Rossignol R, Gilkerson R, Aggeler R et al., Energy substrate modulates mitochondrial structure and oxidative capacity in cancer cells, Cancer Res 64:985-93, 2004.
11. Wouters MA, Lau KK, Hogg PJ, Cross-strand disulphides in cell entry proteins: Poised to act, Bioessays 26:73-9, 2004.
12. Kabsch W, Sander C, Dictionary of protein secondary structure: Pattern recognition of hydrogen-bonded and geometrical features, Biopolymers 22:2577-637, 1983.
13. Murzin AG, Brenner SE, Hubbard T, Chothia C, SCOP: A structural classification of proteins database for the investigation of sequences and structures, J Mol Biol 247:536-40, 1995.
14. Pearlman DA, Case DA, Caldwell JW et al., AMBER, a computer program for applying molecular mechanics, normal mode analysis, molecular dynamics and free energy calculations to elucidate the structures and energies of molecules, Comp Phys Commun 91:1-41, 1995.
15. Harrison PM, Sternberg MJ, The disulphide β-cross: From cystine geometry and clustering to classification of small disulphide-rich protein folds, J Mol Biol 264: 603-23, 1996.
16. Görbitz CH, Conformational properties of disulphide bridges. 2. Rotational potentials of diethyl disulphide, J Phys Org Chem 7:259-267, 1994.
17. Cai S, Singh BR, Role of the disulfide cleavage induced molten globule state of type a botulinum neurotoxin in its endopeptidase activity, Biochemistry 40:15327-33, 2001.
18. Jacob-Dubuisson F, Pinkner J, Xu Z et al., PapD chaperone function in pilus biogenesis depends on oxidant and chaperone-like activities of DsbA, Proc Natl Acad Sci USA 91:11552-6, 1994.
19. Salemme FR, Structural properties of protein beta-sheets, Prog Biophys Mol Biol 42(2-3):95-133, 1983.
20. Richardson JS, Richardson DC, Prediction of protein structure and the principles of protein conformation, in Fasman GD (ed.) Prediction of Protein Structure and the Principles of Protein Conformation, pp. 1-99, Plenum Press, New York, 1989.
21. Dietz KJ, Plant peroxiredoxins, Annu Rev Plant Biol 54:93-107, 2003.
22. Powers JP, Rozek A, Hancock RE, Structure-activity relationships for the β-hairpin cationic antimicrobial peptide polyphemusin I, Biochim Biophys Acta 1698:239-50, 2004.
23. Buhrman G, Parker B, Sohn J et al., Structural mechanism of oxidative regulation of the phosphatase Cdc25B via an intramolecular disulfide bond, Biochemistry 44:7602, 2005.