Mapping of immunogenic and protein-interacting regions at the surface of the seven-bladed β-propeller domain of the HIV-1 cellular interactor EED

Virology Journal

Volumn 5, Issue , 2008, Pages

  Rakotobe, Dina ^a   Violot, Sébastien ^a,b   Hong, Saw See ^a   Gouet, Patrice ^b   Boulanger, Pierre ^a,c  

^a UNIVERSITÉ LYON 1   (France)

^b INSTITUT DE BIOLOGIE ET CHIMIE DES PROTÉINES   (France)

^c HOSPICES CIVILS DE LYON   (France)

Author keywords

[No Author keywords available]

Indexed keywords

CELL PROTEIN; EMBRYONIC ECTODERM DEVELOPMENT PROTEIN; EMBRYONIC ECTODERM DEVELOPMENT PROTEIN ANTIBODY; EPITOPE; INTEGRASE; PROTEIN ANTIBODY; PROTEIN WD 40; UNCLASSIFIED DRUG; ANTIBODY; DNA BINDING PROTEIN; EED PROTEIN, HUMAN; EZH2 PROTEIN, HUMAN; GAG PROTEIN; HUMAN IMMUNODEFICIENCY VIRUS ANTIGEN; P17 PROTEIN, HUMAN IMMUNODEFICIENCY VIRUS TYPE 1; REPRESSOR PROTEIN; TRANSCRIPTION FACTOR;

ALPHA HELIX; AMINO TERMINAL SEQUENCE; ARTICLE; BINDING SITE; CARBOXY TERMINAL SEQUENCE; CONTROLLED STUDY; CRYSTALLOGRAPHY; HUMAN IMMUNODEFICIENCY VIRUS 1; IMMUNOGENICITY; IMMUNOREACTIVITY; NONHUMAN; PROTEIN BINDING; PROTEIN DOMAIN; PROTEIN FOLDING; PROTEIN INTERACTION; PROTEIN STRUCTURE; SEQUENCE HOMOLOGY; SURFACE PROPERTY; THREE DIMENSIONAL IMAGING; AMINO ACID SEQUENCE; ANIMAL; CHEMICAL STRUCTURE; CHEMISTRY; CRYSTALLIZATION; EPITOPE MAPPING; HUMAN; IMMUNOLOGY; METABOLISM; MOLECULAR GENETICS; RABBIT; STRUCTURAL HOMOLOGY;

HUMAN IMMUNODEFICIENCY VIRUS 1;

AMINO ACID SEQUENCE; ANIMALS; ANTIBODIES; BINDING SITES; CRYSTALLIZATION; DNA-BINDING PROTEINS; EPITOPE MAPPING; GAG GENE PRODUCTS, HUMAN IMMUNODEFICIENCY VIRUS; HIV ANTIGENS; HIV INTEGRASE; HUMANS; IMAGING, THREE-DIMENSIONAL; MODELS, MOLECULAR; MOLECULAR SEQUENCE DATA; PROTEIN FOLDING; RABBITS; REPRESSOR PROTEINS; STRUCTURAL HOMOLOGY, PROTEIN; TRANSCRIPTION FACTORS;

EID: 41949133963     PISSN: None     EISSN: 1743422X     Source Type: Journal    
DOI: 10.1186/1743-422X-5-32     Document Type: Article

References (45)

1. Evolutionary conservation and predicted structure of the Drosophila extra sex combs repressor protein. J Ng R Li K Morgan J Simon, Mol Cell Biol 1997 17 6663 6672 9343430
2. Positional cloning of a global regulator of anterior-posterior patterning in mice. A Schumacher C Faust T Magnuson, Nature 1996 383 250 253 10.1038/383250a0 8805699
3. The murine polycombgroup eed and its human orthologue: functional implications of evolutionary conservation. A Schumacher O Lichtarge S Schwartz T Magnusson, Genomics 1998 54 79 88 10.1006/geno.1998.5509 9806832
4. Locking in stable states of gene expression: transcriptional control during Drosophila development. J Simon, Curr Opin Cell Biol 1995 7 376 385 10.1016/0955-0674(95)80093-X 7662368
5. Characterization of interactions between the mammalian Polycomb-group proteins Enx1/EZH2 and EED suggests the existence of different mammalian Polycomb-group protein complexes. RGAB Sewalt J van der Vlag MJ Gunster KM Hamer JL den Blaauwen DPE Satijn T Hendrix R van Driel AP Otte, Mol Cell Biol 1998 18 3586 3595 9584199
6. The ancient regulatory-protein family of WD-repeat proteins. EJ Neer CJ Schmidt R Nambudripad TF Smith, Nature 1994 371 297 300 10.1038/371297a0 8090199
7. The product of the murine homolog of the Drosophila extra sex combs gene displays transcriptional repressor activity. O Denisenko C Bomsztyk, Mol Cell Biol 1997 17 4707 4717 9234727
8. The human WD repeat protein WAIT-1 specifically interacts with the cytoplasmic tails of b7-integrins. M Rietzler M Bittner W Kolanus A Schuster B Holzmann, J Biol Chem 1998 273 27459 27466 10.1074/jbc.273.42.27459 9765275
9. Regulation of the avidity of integrin alpha4 beta7 by the beta7 cytoplasmic domain. DT Crowe H Chiu S Fong IL Weissmann, J Biol Chem 1994 269 14411 14418 8182047
10. Stimulation of tyrosine phosphorylation after ligation of beta7 and beta1 integrins on human B cells. SN Manié A Astier D Wang JS Phifer J Chen AI Lazarovits C Morimoto AS Freedman, Blood 1996 87 1855 1861 8634433
11. Gene repression by Polycomb group protein complexes: a distinct complex for every occasion ? AP Otte THJ Kwaks, Curr Opin Genet Dev 2003 13 448 454 10.1016/S0959-437X(03)00108-4 14550408
12. Silencing of human polycomb target genes is associated with methylation of histone H3 Lys27. A Kirmizis SM Bartley A Kuzmichev R Margueron D Reinberg R Green PJ Farnham, Genes & Dev 2004 18 1592 1605 15231737 10.1101/gad.1200204
13. Different Ezh2-containing complexes target methylation of histone H1 or nucleosomal histone H3. A Kuzmichev T Jenuwein P Tempst D Reinberg, Mol Cell 2004 14 183 193 10.1016/S1097-2765(04)00185-6 15099518
14. SUZ12 is required for both the histone methyltransferase activity and the silencing function of the EED-EZH2 complex. R Cao Y Zhang, Molec Cell 2004 15 57 67 10.1016/j.molcel.2004.06.020 15225548
15. H-EED, the product of the human homolog of the murine eed gene, binds to the matrix protein of HIV-1. R Peytavi SS Hong B Gay A Dupuy d'Angeac L Selig S Bénichou R Benarous P Boulanger, J Biol Chem 1999 274 1635 1645 10.1074/jbc.274.3.1635 9880543
16. The human Polycomb group EED protein interacts with the integrase of human immunodeficiency virus type 1. S Violot SS Hong D Rakotobe C Petit B Gay K Moreau G Billaud S Priet J Sire O Schwartz, J Virol 2003 77 12507 12522 14610174 10.1128/JVI.77.23.12507-12522.2003
17. HIV-1 Nef mimics an integrin receptor signal that recruits the polycomb group protein Eed to the plasma membrane. V Witte B Laffert O Rosorius P Lischka K Blume G Galler A Stilper D Willbold P D'Aloja M Sixt, Mol Cell 2004 13 179 190 10.1016/S1097-2765(04)00004-8 14759364
18. Polycombing the genome: Pcg, trxG, and chromatin silencing. V Pirrotta, Cell 1998 93 333 336 10.1016/S0092-8674(00)81162-9 9590168
19. The Polycomb group - no longer an exclusive club ? HW Brock M van Lohuizen, Curr Opin Genet Dev 2001 11 175 181 10.1016/S0959-437X(00)00176-3 11250141
20. Polycomb, epigenomes, and control of cell identity. V Orlando, Cell 2003 112 5 599 606 10.1016/S0092-8674(03)00157-0 12628181
21. Genome imprinting regulated by the mouse Polycomb group protein Eed. J Mager ND Montgomery FP de Villena T Magnusson, Nat Genet 2003 33 433 434 10.1038/ng1125 12665859
22. HIV-1 integration in the human genome favors active genes and local hotspots. AR Schroder P Shinn H Chen C Berry JR Ecker F Bushman, Cell 2002 110 521 529 10.1016/S0092-8674(02)00864-4 12202041
23. Transcription start regions in the human genome are favored targets for MLV integration. X Wu Y Li B Crise SM Burgess, Science 2003 300 1749 1751 10.1126/science.1083413 12805549
24. The ups and downs of gene expression and retroviral DNA integration. A Engelman, Proc Natl Acad Sci USA 2005 102 1275 1276 15677323 10.1073/pnas.0409587101
25. HIV-1 integration: an interplay between HIV-1 integrase, cellular and viral proteins. B Van Maele Z Debyser, AIDS Reviews 2005 7 26 43 15875659
26. Human Polycomb group EED protein negatively affects HIV-1 assembly and release. D Rakotobe J-C Tardy P Andre SS Hong J-L Darlix P Boulanger, Retrovirology 2007 4 37 17547741 10.1186/1742-4690-4-37
27. The 2.0 Å crystal structure of a heterotrimeric G protein. DG Lambright J Sondek A Bohm NP Skiba HE Hamm PB Sigler, Nature 1996 379 311 319 10.1038/379311a0 8552184
28. Crystal structure of a Gprotein beta gamma dimer at 2.1Å resolution. J Sondek A Bohm DG Lambright HE Hamm PB Sigler, Nature 1996 379 369 374 10.1038/379369a0 8552196
29. The Protein Data Bank. HM Berman J Westbrook Z Feng G Gilliland TN Bhat H Weissig IN Shindyalov PE Bourne, Nucleic Acids Res 2000 28 235 242 10592235 10.1093/nar/28.1.235
30. Structural basis of EZH2 recognition by EED. Z Han X Xing M Hu Y Zhang P Liu J Chai, Structure 2007 15 1306 1315 10.1016/j.str.2007.08.007 17937919
31. Threedimensional structure of the quinoprotein methylamine dehydrogenase from Paracoccus denitrificans determined by molecular replacement at 2.8 A resolution. L Chen FS Mathews VL Davidson EG Huizinga FM Vellieux WG Hol, Proteins 1992 14 288 299 10.1002/prot.340140214 1409575
32. The structure of the G protein heterotrimer Gi alpha 1 beta 1 gamma 2. MA Wall DE Coleman E Lee JA Iniguez-Lluhi BA Posner AG Gilman SR Sprang, Cell 1995 83 1047 1058 10.1016/0092-8674(95)90220-1 8521505
33. Protein ligands of human Adenovirus type 2 outer capsid identified by biopanning of a phage-displayed peptide library on separate domains of WT and mutant penton capsomers. SS Hong P Boulanger, EMBO J 1995 14 4714 4727 7588601
34. Adenovirus type 5 fiber knob binds to MHC class I alpha2 domain at the surface of human epithelial and B lymphoblastoid cells. SS Hong L Karayan J Tournier DT Curiel PA Boulanger, EMBO J 1997 16 2294 2306 9171344 10.1093/emboj/16.9.2294
35. The HIV-1 Nef protein enhances the affinity of reverse transcriptase for RNA in vitro. C Fournier J-C Cortay C Carbonnelle C Ehresmann R Marquet P Boulanger, Virus Genes 2002 25 255 269 10.1023/A:1020971823562 12881637
36. Interaction and co-encapsidation of HIV-1 Vif and Gag recombinant proteins. I Huvent SS Hong C Fournier B Gay J Tournier C Carriere M Courcoul R Vigne B Spire P Boulanger, J Gen Virol 1998 79 1069 1081 9603321
37. Using CLUSTAL for multiple sequence alignments. DG Higgins JD Thompson TJ Gibson, Methods Enzymol 1996 266 383 402 8743695
38. Improved performance in protein secondary structure prediction by inhomogeneous score combination. Y Guermeur C Geourjon P Gallinari G Deléage, Bioinformatics 1999 15 413 421 10.1093/bioinformatics/15.5.413 10366661
39. Identification and application of the concepts important for accurate and reliable protein secondary structure prediction. RD King MJ Sternberg, Protein Sci 1996 5 2298 2310 8931148
40. Prediction of protein secondary structure at better than 70% accuracy. B Rost C Sander, J Mol Biol 1993 232 584 599 10.1006/jmbi.1993.1413 8345525
41. NPS@: network protein sequence analysis. C Combet C Blanchet C Geourjon G Deléage, Trends Biochem Sci 2000 25 147 150 10.1016/S0968-0004(99)01540- 6 10694887
42. Polyalanine reconstruction from Calpha positions using the program CALPHA can aid initial phasing of data by molecular replacement procedures. RM Esnouf, Acta Cryst D 1997 53 6 665 672 10.1107/S0907444997005829 15299854
43. CRYStallize: a crystallographic symmetry display and handling subpackage in TOM/FRODO. A Roussel JC Fontecilla-Camps C Cambillau, J Mol Graph 1990 8 86 88 10.1016/0263-7855(90)80087-V 2282356
44. Crystallography & NMR system: A new software suite for macromolecular structure determination. AT Brünger PD Adams GM Clore WL DeLano P Gros RW Grosse-Kunstleve JS Jiang J Kuszewski M Nilges NS Pannu RJ Read LM Rice T Simonson GL Warren, Acta Crystallogr D 1998 54 905 921 10.1107/S0907444998003254 9757107
45. Dictionary of protein secondary structure: pattern recognition of hydrogen-bonded and geometrical features. W Kabsch C Sander, Biopolymers 1983 22 2577 2637 10.1002/bip.360221211 6667333