Architecture of β-barrel membrane proteins: Analysis of trimeric porins

Protein Science

Volumn 7, Issue 9, 1998, Pages 2026-2032

  Seshadri, K ^a   Garemyr, Robert ^a   Wallin, Erik ^a   Von Heijne, Gunnar ^a   Elofsson, Arne ^a  

^a STOCKHOLM UNIVERSITY   (Sweden)

Author keywords

Membrane protein; Porin; Three dimensional structure; Barrel

Indexed keywords

MEMBRANE PROTEIN; PORIN;

ARCHITECTURE; ARTICLE; BACTERIAL OUTER MEMBRANE; NONHUMAN; PRIORITY JOURNAL; PROTEIN CONFORMATION; THREE DIMENSIONAL IMAGING;

EID: 0031716791     PISSN: 09618368     EISSN: None     Source Type: Journal    
DOI: 10.1002/pro.5560070919     Document Type: Article

References (27)

1. Agterberg M, Adriaanse H, Tijhaar E, Resink A, Tommassen J. 1989. Role of the cell surface-exposed regions of outer membrane protein PhoE of Escherichia coli K12 in the biogenesis of the protein. Eur J Biochem 185:365-370.
2. Bairoch A, Apweiler R. 1996. The SWISS-PROT protein sequence data bank and its new supplement TREMBL. Nucleic Acids Res 24:17-21.
3. Bowie JU. 1997. Helics packing in membrane proteins. J Mol Biol 272(5):780-789.
4. Bowie JU, Lüthy R, Eisenberg D. 1997. A method to identify protein sequence that fold into a known three-dimensional structure. Science 253:164-170.
5. Claverie J-M, Daulmiere C. 1991. Smoothing profiles with sliding windows: Better to wear a hat! CABIOS 7:113-115.
6. Conolly MJ. 1983. Analytical molecular surface calculation. J Appl Crystallogr 17:548-558.
7. Cowan SW, Schirmer T, Rummel G, Steiert M, Ghosh R, Pauptit RA, Jansonius JN, Rosenbusch JP. 1992. Crystal structures explain functional properties of two E. coli porins. Nature 358:727-733.
8. Engelman DM, Steitz TA, Goldman A. 1986. Identifying nonpolar transbilayer helices in amino acid sequences of membrane proteins. Annu Rev Biophys Biophys Chem 15:321-353.
9. Gromiha MM, Majumdar R, Ponnuswamy PK. 1997. Identification of membrane spanning β-strands in bacterial porins. Protein Eng 10(5):497-500.
10. Hunt JF, Earnest TN, Bousche O, Kalghatgi K, Reilly K, Horvath C, Rothschild KJ, Engelman DM. 1997. A biophysical study of integral membrane protein folding. Biochemistry 36:15156-15176.
11. Kabsch W, Sander C. 1983. Dictionary of protein secondary structure: Pattern recognition of hydrogen-bonded and geometrical features. Biopolymers 22:2577-2637.
12. Kraulis P. 1991. MOLSCRIPT: A program to produce both detailed and schematic plots of protein structures. J Appl Cryst 24:946-950.
13. Kreusch A, Neubuser A, Schlitz E, Weckesser J, Schulz GE. 1994. Structure of the membane channel porin from Rhodopseudomonas blastica at 2.0 Å resolution. Protein Sci 3:58-63.
14. Le Grand S, Merz KJ. 1993. Rapid approximation to molecular surface area via the use of boolean look-up tables. J Global Optimiz 3:49-66.
15. Pearson WR, Lipman DJ. 1988. Improved tools for biological sequence analysis. Proc Natl Acad Sci USA 85:2444-2448.
16. Popot JL, Engelman DM. 1997. Membrane protein folding and oligomerization: The 2-stage model. Biochemistry 29:4031-4037.
17. Przybylski M, Glocker MO, Nestel U, Schnaible V, Bluggel M, Diederichs K, Weckesser J, Schad M, Schmid A, Welte W, Benz R. 1996. X-ray crystallographic and mass spectrometric structure determination and functional characterization of succinylated porin from Rhodobacter capsulatus: Implications for ion selectivity and single-channel conductance. Protein Sci 5:1477-1489.
18. Schirmer T, Cowan SW. 1993. Prediction of membrane-spanning β-strands and its application to maltoporin. Protein Sci 2:1361-1363.
19. Schirmer T, Keller TA, Wang Y-F, Rosenbusch JP. 1995. Structural basis for sugar translocation through maltoporin channels at 3.1 Å resolution. Science 267:512-514.
20. Schneider TD, Stormo GD, Gold L, Ehrenfeucht A. 1986. Information content of binding sites on nucleotide sequences. J Mol Biol 188(3):415-431.
21. Thompson JD, Higgins DG, Gibson TJ. 1994. CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties weight matrix choice. Nucleic Acids Res 22:4673-4680.
22. von Heijne G. 1997. Principles of membrane protein assembly and structure. Progr Biophys Mol Biol 66:113-139.
23. Wallin E, Tsukkihara T, Yoshikawa S, von Heijne G, Elofsson A. 1997. Architecture of helix bundle membrane proteins. An analysis of cytochrome c oxidase from bovine mitochondria. Protein Sci 6:808-815.
24. Weiss MS, Abele U, Weckesser J, Welte W, Schlitz E, Schulz GE. 1991a. Molecular architecture and electrostatic properties of a bacterial porin. Science 254:1627-1630.
25. Weiss MS, Kreusch A, Schiltz E, Nestel U, Welte W, Weckesser J, Schulz GE. 1991b. The structure of porin from Rhodobacter capsulatus at 1.8 Å resolution. FEBS Lett 280:379-382.
26. Weiss MS, Schulz GE. 1992. Structure of porin refined at 1.8 Å resolution. J Mol Biol 227(2):493-509.
27. Weiss MS, Wacker T, Weckesser J, Welte W, Schulz GE. 1990. The three-dimensional structure of porin Rhodobacter capsulatus at 3 Å resolution. FEBS Lett 267(2):268-272.