Molecular modeling of PepT1 - Towards a structure

Journal of Membrane Biology

Volumn 213, Issue 2, 2006, Pages 79-88

  Meredith, D ^a   Price, R A ^b  

^a UNIVERSITY OF OXFORD   (United Kingdom)

^b UNIVERSITY OF MANCHESTER   (United Kingdom)

Author keywords

Modeling; PepT1; PepT2; Peptide transporter; Structure

Indexed keywords

PEPTIDE;

AMINO ACID TRANSPORT; COMPUTER ANALYSIS; CRYSTAL STRUCTURE; CRYSTALLIZATION; MEDICAL RESEARCH; MEMBRANE TRANSPORT; MOLECULAR MODEL; PROTEIN BINDING; RECEPTOR BINDING; REVIEW; SEQUENCE HOMOLOGY; VIRTUAL REALITY;

AMINO ACID SEQUENCE; ANIMALS; COMPUTER SIMULATION; CRYSTALLOGRAPHY, X-RAY; ESCHERICHIA COLI PROTEINS; HUMANS; HYDROPHOBICITY; MEMBRANE TRANSPORT PROTEINS; MODELS, MOLECULAR; MOLECULAR SEQUENCE DATA; MOLECULAR STRUCTURE; MONOSACCHARIDE TRANSPORT PROTEINS; MUTATION; PROTEIN STRUCTURE, TERTIARY; RABBITS; SEQUENCE HOMOLOGY, AMINO ACID; SYMPORTERS;

BACTERIA (MICROORGANISMS); ORYCTOLAGUS CUNICULUS;

EID: 34247246745     PISSN: 00222631     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00232-006-0876-6     Document Type: Review

References (42)

1. Abramson, J., Smirnova, I., Kasho, V., Verner, G., Kaback, H.R., Iwata, S. 2003. Structure and mechanism of the lactose permease of Escherichia coli. Science 301:610-615
2. Abramson, J., Kaback, H.R., Iwata, S. 2004. Structural comparison of lactose permease and the glycerol-3-phosphate anti-porter: members of the major facilitator superfamily. Curr. Opin. Struc. Biol. 14:413-419
3. Bailey, P.D., Boyd, C.A.R., Bronk, J.R., Collier, I.D., Meredith, D., Morgan, K.M., Temple, C.S. 2000. How to make drugs orally active: a substrate template for peptide transporter PepT1. Angew. Chem. Int. Ed. 39:506-508
4. Bailey, P.D., Boyd, C.A.R., Collier, I.D., George, J.P., Kellett, G.L., Meredith, D., Morgan, K.M., Pettecrew, R., Price, R.A. 2006. Affinity prediction for substrates of the peptide transporter PepT1. Chem. Commun. (Camb.). 2006:323-325
5. Bates, P.A., Sternberg, M.J.E. 1999. Model building by comparison at CASP3: Using expert knowledge and computer automation. Proteins: Structure, Function and Genetics, 3(Suppl):47-54
6. Bates, P.A., Kelley, L.A., MacCallum, R.M., Sternberg, M.J.E. 2001. Enhancement of protein modeling by human intervention in applying the automatic programs 3DJIGSAW and 3D-PSSM. Proteins: Structure, Function and Genetics 5(Suppl):39-46
7. Boll, M., Daniel, H. 1995. Target size analysis of the peptide/H(+)-symporter in kidney brush-border membranes. Biochim. Biophys. Acta 1233:145-152
8. Bolger, M.B., Haworth, I.S., Yeung, A.K., Ann, D., von Grafenstein, H., Hamm-Alvarez, S., Okamoto, C.T., Kim, K.J., Basu, S.K., Wu, S., Lee, V.H. 1998. Structure, function, and molecular modeling approaches to the study of the intestinal dipeptide transporter PepT1. J. Pharm. Sci. 87:1286-1291
9. Chang, A.B., Lin, R., Studley, W.K., Tran, C.V., Saier, M.H. 2004. Phylogeny as a guide to structure and function of membrane transport proteins. Mol. Membr. Biol. 21:171-181
10. Contreras-Moreira, B., Bates, P.A. 2002. Domain Fishing: a first step in protein comparative modeling. Bioinformatics 18:1141-1142
11. Covitz, K.M., Amidon, G.L., Sadee, W. 1998. Membrane topology of the human dipeptide transporter, hPEPT1, determined by epitope insertions. Biochemistry 37:15214-15221
12. Daniel, H. 2004. Molecular and integrative physiology of intestinal peptide transport. Annu. Rev. Physiol. 66:361-384
13. Daniel, H., Kottra, G. 2004. The proton oligopeptide cotransporter family SLC15 in physiology and pharmacology. Pfluegers Arch. 447:610-618
14. Daniel, H., Spanier, B., Kottra, G., Weitz, D. 2006. From bacteria to man: archaic proton-dependent peptide transporters at work. Physiology 21:93-102
15. Fei, Y.J., Kanai, Y., Nussberger, S., Ganapathy, V., Leibach, F.H., Romero, M.F., Singh, S.K., Boron, W.F., Hediger, M.A. 1994. Expression cloning of a mammalian proton-coupled oligopeptide transporter. Nature 368:563-566
16. Gebauer, S., Knutter, I., Hartrodt, B., Brandsch, M., Neubert, K., Thondorf, I. 2003. Three-dimensional quantitative structureactivity relationship analyses of peptide substrates of the mammalian H+/peptide cotransporter PEPT1. J. Med. Chem. 46:5725
17. Huang, Y., Lemieux, M.J., Song, J., Auer M. & Wang, D.N. 2003. Structure and mechanism of the glycerol-3-phosphate transporter from Escherichia coli. Science 301:616-620
18. Kaback, H.R., Sahin-Toth, M., Weinglass, A.B. 2001. The kamikaze approach to membrane transport. Nature Rev. Mol. Cell Biol. 2:610-620
19. Kaback, H.R. 2005. Structure and mechanism of the lactose permease. C. R. Biol. 328:557-567
20. Kulkarni, A.A., Haworth, I.S., Lee, V.H. 2003a. Transmembrane segment 5 of the dipeptide transporter hPepT1 forms a part of the substrate translocation pathway. Biochem. Biophys. Res. Commun. 306:177-185
21. Kulkarni, A.A., Haworth, I.S., Uchiyama, T., Lee, V.H. 2003b. Analysis of transmembrane segment 7 of the dipeptide transporter hPepT1 by cysteine-scanning mutagenesis. J. Biol. Chem. 278:51833-51840
22. Lee, V.H., Chu, C., Mahlin, E.D., Basu, S.K., Ann, D.K., Bolger, M.B., Haworth, I.S., Yeung, A.K., Wu, S.K., Hamm-Alvarez, S., Okamoto, C.T. 1999. Biopharmaceutics of transmucosal peptide and protein drug administration: role of transport mechanisms with a focus on the involvement of PepT1. J. Control Release 62:129-140
23. McGuffin, L.J., Bryson, K., Jones, D.T. 2000. The PSIPRED protein structure prediction server. Bioinformatics. 16:404-405
24. Meredith, D., Boyd, C.A.R. 1996. His57 is an essential residue for the transport of the anionic dipeptide D-Phe-L-Glu by PepT1 expressed in Xenopus laevis oocytes. J. Physiol. 497:89P-90P
25. Meredith, D., Boyd, C.A.R., Bronk, J.R., Bailey, P.D., Morgan, K.M., Collier, I.D., Temple, C.S. 1998. 4-aminomethylbenzoic acid is a non-translocated competitive inhibitor of the epithelial peptide transporter PepT1. J. Physiol. 512:629-634
26. Meredith, D., Boyd, C.A.R. 2000. Structure and function of eukaryotic peptide transporters. Cell. Mol. Life Sci. 57:754-778
27. Meredith, D. 2003. Site-directed mutagenesis investigations of the substrate-binding site of the rabbit proton-coupled peptide transporter PepT1 expressed in Xenopus oocytes. J. Physiol. 549P:C7
28. Meredith, D. 2004. Site-directed mutation of arginine 282 to glutamate uncouples the movement of peptides and protons by the rabbit proton-peptide cotransporter PepT1. J. Biol. Chem 279:15795-15798
29. O'Donoghue, P., Luthey-Schulten, Z. 2003. Evolution of structure in aminoacyl-tRNA synthetases. Microbiol. Mol. Biol. Rev. 67:550-573
30. Panitsas, K.E., Boyd, C.A.R., Meredith, D. 2006. Evidence that the rabbit proton-peptide co-transporter PepT1 is a multimer when expressed in Xenopus laevis oocytes. Pfluegers Arch. 452:53-631
31. Paulsen, I.T., Skurray, R.A. 1994. The POT family of transport proteins. Trends Biochem. Sci. 19:404
32. Pieri, M., Boyd, C.A.R., Meredith, D. 2004. Studies on the proton coupling mechanism of the rabbit epithelial H+/peptide transporter PepT1, expressed in Xenopus oocytes. J. Physiol. 559P:C6
33. Pieri, M., Gan, C., Boyd, C.A.R., Meredith, D. 2005. Systematic investigation of the role of the tyrosine residues in the transmembrane regions of the rabbit proton-coupled peptide transporter, PepT1. J. Physiol. 567P:PC171
34. Pieri, M., Boyd, C.A.R., Bailey, P.D., Meredith, D. 2006. The functional role of tyrosine56 in the rabbit proton-peptide cotransporter, PepT1 expressed in Xenopus oocytes. Proc. Physiol. Soc. 2:PC18
35. Saier, M.H., Tran, C.V., Barabote, R.D. 2006. TCDB: the Transporter Classification Database for membrane transport protein analyses and information. Nucleic Acids Res. 34:D181-D186
36. Terada, T., Saito, H., Mukai, M., Inui, K.I. 1996. Identification of the histidine residues involved in substrate recognition by a rat H+/peptide cotransporter, PEPT1. FEBS Lett. 394:196-200
37. Terada & Inui, T. K. 2004. Peptide transporters: structure, function, regulation and application for drug delivery. Curr. Drug. Metab. 5:85-94
38. Ubarretxena-Belandia, I., Tate, C.G. 2004. New insights into the structure and oligomeric state of the bacterial multidrug transporter EmrE: an unusual asymmetric homo-dimer. FEBS Lett. 564:234-238
39. Vig, B.S., Stouch, T.R., Timoszyk, J.K., Quan, Y., Wall, D.A., Smith, R.L., Faria, T.N. 2006. Human PEPT1 pharmacophore distinguishes between dipeptide transport and binding. J. Med. Chem. 49:3636-3644
40. Wang, Y., Geer, L.Y., Chappey, C., Kans, J.A., Bryant, S.H. 2000. Cn3D: sequence and structure views for Entrez. Trends Biochem. Sci. 25:300-302
41. Wilson, M.C., Meredith, D., Fox, J.E., Manoharan, C., Davies, A.J., Halestrap, A.P. 2005. Basigin (CD147) is the target for organomercurial inhibition of monocarboxylate transporter isoforms 1 and 4: the ancillary protein for the insensitive MCT2 is EMBIGIN (gp70). J. Biol. Chem. 280:27213-27221
42. Yeung, A.K., Basu, S.K., Wu, S.K., Chu, C., Okamoto, C.T., Hamm-Alvarez, S.F., von Grafenstein, H., Shen, W.C., Kim, K.J., Bolger, M.B., Haworth, I.S., Ann, D.K., Lee, V.H. 1998. Molecular identification of a role for tyrosine 167 in the function of the human intestinal proton- coupled dipeptide transporter (hPepT1). Biochem. Biophys. Res. Commun. 250:103-107