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VPS29 Is Not an Active Metallo-Phosphatase but Is a Rigid Scaffold Required for Retromer Interaction with Accessory Proteins

Swarbrick, James D., Shaw, Daniel J., Chhabra, Sandeep, Ghai, Rajesh, Valkov, Eugene, Norwood, Suzanne J., Seaman, Matthew N. J., Collins, Brett M.·2011·PLoS ONE

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  • The metazoan equivalent assembly has evolved into two functionally distinct complexes, the retromer (VPS26-VPS35-VPS29) and the ESCPE-1 (SNX1/SNX2 and SNX5/SNX6) complexes.

    “An increasing body of biochemical, cellular and in vivo functional data are consistent with the equivalent metazoan assembly having evolved into two functionally distinct complexes, the retromer (VPS26–VPS35–VPS29) and the ESCPE-1 (SNX1/SNX2 and SNX5/SNX6) complexes (Norwood et al., 2011; Swarbrick et al., 2011; Kvainickas et al., 2017; Simonetti et al., 2017, 2019; Strutt et al., 2019).”

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Research works printed but not linked: 66

  1. JS Bonifacino, 2008, Retromer., Curr Opin Cell Biol, 20, 427, 10.1016/j.ceb.2008.03.009 · DOI · Paper page
  2. BM Collins, 2008, The structure and function of the retromer protein complex., Traffic, 9, 1811, 10.1111/j.1600-0854.2008.00777.x · DOI
  3. MN Seaman, 2005, Recycle your receptors with retromer., Trends Cell Biol, 15, 68, 10.1016/j.tcb.2004.12.004 · DOI · Paper page
  4. MN Seaman, 2008, Endosome protein sorting: motifs and machinery., Cell Mol Life Sci, 65, 2842
  5. CN Arighi, 2004, Role of the mammalian retromer in sorting of the cation-independent mannose 6-phosphate receptor., J Cell Biol, 165, 123, 10.1083/jcb.200312055 · DOI · Paper page
  6. TY Belenkaya, 2008, The retromer complex influences Wnt secretion by recycling wntless from endosomes to the trans-Golgi network., Dev Cell, 14, 120, 10.1016/j.devcel.2007.12.003 · DOI
  7. M Canuel, 2008, AP-1 and retromer play opposite roles in the trafficking of sortilin between the Golgi apparatus and the lysosomes., Biochem Biophys Res Commun, 366, 724, 10.1016/j.bbrc.2007.12.015 · DOI
  8. DY Coudreuse, 2006, Wnt gradient formation requires retromer function in Wnt-producing cells., Science, 312, 921, 10.1126/science.1124856 · DOI
  9. X Franch-Marro, 2008, Wingless secretion requires endosome-to-Golgi retrieval of Wntless/Evi/Sprinter by the retromer complex., Nat Cell Biol, 10, 170, 10.1038/ncb1678 · DOI
  10. SF Nothwehr, 1999, Distinct domains within Vps35p mediate the retrieval of two different cargo proteins from the yeast prevacuolar/endosomal compartment., Mol Biol Cell, 10, 875, 10.1091/mbc.10.4.875 · DOI
  11. MN Seaman, 2004, Cargo-selective endosomal sorting for retrieval to the Golgi requires retromer., J Cell Biol, 165, 111, 10.1083/jcb.200312034 · DOI · Paper page
  12. MN Seaman, 2007, Identification of a novel conserved sorting motif required for retromer-mediated endosome-to-TGN retrieval., J Cell Sci, 120, 2378, 10.1242/jcs.009654 · DOI
  13. MN Seaman, 1998, A membrane coat complex essential for endosome-to-Golgi retrograde transport in yeast., J Cell Biol, 142, 665, 10.1083/jcb.142.3.665 · DOI · Paper page
  14. M Verges, 2004, The mammalian retromer regulates transcytosis of the polymeric immunoglobulin receptor., Nat Cell Biol, 6, 763, 10.1038/ncb1153 · DOI
  15. M Tabuchi, 2010, Retromer-mediated direct sorting is required for proper endosomal recycling of the mammalian iron transporter DMT1., J Cell Sci, 123, 756, 10.1242/jcs.060574 · DOI
  16. J Carlton, 2004, Sorting Nexin-1 Mediates Tubular Endosome-to-TGN Transport through Coincidence Sensing of High- Curvature Membranes and 3-Phosphoinositides., Curr Biol, 14, 1791, 10.1016/j.cub.2004.09.077 · DOI · Paper page
  17. PJ Cullen, 2008, Endosomal sorting and signalling: an emerging role for sorting nexins., Nat Rev Mol Cell Biol, 9, 574, 10.1038/nrm2427 · DOI · Paper page
  18. K Nakada-Tsukui, 2005, A retromerlike complex is a novel Rab7 effector that is involved in the transport of the virulence factor cysteine protease in the enteric protozoan parasite Entamoeba histolytica., Mol Biol Cell, 16, 5294, 10.1091/mbc.E05-04-0283 · DOI
  19. R Rojas, 2008, Regulation of retromer recruitment to endosomes by sequential action of Rab5 and Rab7., J Cell Biol, 183, 513, 10.1083/jcb.200804048 · DOI · Paper page
  20. R Rojas, 2007, Interchangeable but essential functions of SNX1 and SNX2 in the association of retromer with endosomes and the trafficking of mannose 6-phosphate receptors., Mol Cell Biol, 27, 1112, 10.1128/MCB.00156-06 · DOI
  21. MNJ Seaman, 2009, Membrane recruitment of the cargo-selective retromer subcomplex is catalysed by the small GTPase Rab7 and inhibited by the Rab-GAP TBC1D5., J Cell Sci, 122, 2371, 10.1242/jcs.048686 · DOI · Paper page
  22. BM Collins, 2008, Structure of Vps26B and mapping of its interaction with the retromer protein complex., Traffic, 9, 366, 10.1111/j.1600-0854.2007.00688.x · DOI
  23. CR Haft, 2000, Human orthologs of yeast vacuolar protein sorting proteins Vps26, 29, and 35: assembly into multimeric complexes., Mol Biol Cell, 11, 4105, 10.1091/mbc.11.12.4105 · DOI · Paper page
  24. A Hierro, 2007, Functional architecture of the retromer cargo-recognition complex., Nature, 449, 1063, 10.1038/nature06216 · DOI · Paper page
  25. SJ Norwood, 2010, Assembly and Solution Structure of the Core Retromer Protein Complex., Traffic
  26. A Gullapalli, 2004, A role for sorting nexin 2 in epidermal growth factor receptor down-regulation: evidence for distinct functions of sorting nexin 1 and 2 in protein trafficking., Mol Biol Cell, 15, 2143, 10.1091/mbc.E03-09-0711 · DOI
  27. BM Collins, 2005, Vps29 has a phosphoesterase fold that acts as a protein interaction scaffold for retromer assembly., Nat Struct Mol Biol, 12, 594, 10.1038/nsmb954 · DOI
  28. S Gokool, 2007, Identification of a conserved motif required for Vps35p/Vps26p interaction and assembly of the retromer complex., Biochem J, 408, 287, 10.1042/BJ20070555 · DOI
  29. H Shi, 2006, The retromer subunit Vps26 has an arrestin fold and binds Vps35 through its C-terminal domain., Nat Struct Mol Biol, 13, 540, 10.1038/nsmb1103 · DOI
  30. D Wang, 2005, Crystal structure of human vacuolar protein sorting protein 29 reveals a phosphodiesterase/nuclease-like fold and two protein-protein interaction sites., J Biol Chem, 280, 22962, 10.1074/jbc.M500464200 · DOI
  31. E Damen, 2006, The human Vps29 retromer component is a metallo-phosphoesterase for a cation-independent mannose 6-phosphate receptor substrate peptide., Biochem J, 398, 399, 10.1042/BJ20060033 · DOI
  32. ME Harbour, 2010, The cargo-selective retromer complex is a recruiting hub for protein complexes that regulate endosomal tubule dynamics., J Cell Sci, 123, 3703, 10.1242/jcs.071472 · DOI · Paper page
  33. CJ Jackson, 2008, Malonate-bound structure of the glycerophosphodiesterase from Enterobacter aerogenes (GpdQ) and characterization of the native Fe2+ metal-ion preference., Acta Crystallogr Sect F Struct Biol Cryst Commun, 64, 681, 10.1107/S1744309108017600 · DOI
  34. Y Shen, 2009, TALOS+: a hybrid method for predicting protein backbone torsion angles from NMR chemical shifts., J Biomol NMR, 44, 213, 10.1007/s10858-009-9333-z · DOI
  35. DM Korzhnev, 2004, Low-populated folding intermediates of Fyn SH3 characterized by relaxation dispersion NMR., Nature, 430, 586, 10.1038/nature02655 · DOI
  36. A Bax, 2003, Weak alignment offers new NMR opportunities to study protein structure and dynamics., Protein Sci, 12, 1, 10.1110/ps.0233303 · DOI
  37. RS Lipsitz, 2004, Residual dipolar couplings in NMR structure analysis., Annu Rev Biophys Biomol Struct, 33, 387, 10.1146/annurev.biophys.33.110502.140306 · DOI
  38. S Raman, 2010, NMR structure determination for larger proteins using backbone-only data., Science, 327, 1014, 10.1126/science.1183649 · DOI
  39. G Bouvignies, 2005, Identification of slow correlated motions in proteins using residual dipolar and hydrogen-bond scalar couplings., Proc Natl Acad Sci U S A, 102, 13885, 10.1073/pnas.0505129102 · DOI
  40. M Zweckstetter, 2000, Prediction of sterically induced alignment in a dilute liquid crystalline phase: Aid to protein structure determination by NMR., Journal of the American Chemical Society, 122, 3791, 10.1021/ja0000908 · DOI
  41. JD Swarbrick, 2005, Structure and substrate-binding mechanism of human Ap4A hydrolase., J Biol Chem, 280, 8471, 10.1074/jbc.M412318200 · DOI
  42. T Wassmer, 2009, The retromer coat complex coordinates endosomal sorting and dynein-mediated transport, with carrier recognition by the trans-Golgi network., Dev Cell, 17, 110, 10.1016/j.devcel.2009.04.016 · DOI
  43. A Gullapalli, 2006, An essential role for SNX1 in lysosomal sorting of protease-activated receptor-1: evidence for retromer-, Hrs-, and Tsg101-independent functions of sorting nexins., Mol Biol Cell, 17, 1228, 10.1091/mbc.E05-09-0899 · DOI
  44. R Ishima, 2000, Protein dynamics from NMR., Nat Struct Biol, 7, 740, 10.1038/78963 · DOI
  45. A Mittermaier, 2006, New tools provide new insights in NMR studies of protein dynamics., Science, 312, 224, 10.1126/science.1124964 · DOI
  46. C Bracken, 1999, Temperature dependence of intramolecular dynamics of the basic leucine zipper of GCN4: implications for the entropy of association with DNA., J Mol Biol, 285, 2133, 10.1006/jmbi.1998.2429 · DOI
  47. SW Homans, 2005, Probing the binding entropy of ligand-protein interactions by NMR., Chembiochem, 6, 1585, 10.1002/cbic.200500010 · DOI
  48. AL Lee, 2000, Redistribution and loss of side chain entropy upon formation of a calmodulin-peptide complex., Nat Struct Biol, 7, 72, 10.1038/71280 · DOI
  49. MN Seaman, 2009, Membrane recruitment of the cargo-selective retromer subcomplex is catalysed by the small GTPase Rab7 and inhibited by the Rab-GAP TBC1D5., J Cell Sci
  50. MN Seaman, 2002, Identification of the functional domains of yeast sorting nexins Vps5p and Vps17p., Mol Biol Cell, 13, 2826, 10.1091/mbc.02-05-0064 · DOI · Paper page
  51. N Dephoure, 2008, A quantitative atlas of mitotic phosphorylation., Proc Natl Acad Sci U S A, 105, 10762, 10.1073/pnas.0805139105 · DOI · Paper page
  52. W Kabsch, 1993, Automatic processing of rotation diffraction data from crystals of initially unknown symmetry and cell constants., j Appl Cryt, 26, 795, 10.1107/S0021889893005588 · DOI
  53. 1994, The CCP4 suite: programs for protein crystallography., Acta Crystallogr D Biol Crystallogr, 50, 760, 10.1107/S0907444994003112 · DOI
  54. PD Adams, 2010, PHENIX: a comprehensive Python-based system for macromolecular structure solution., Acta Cryst D, 66, 213, 10.1107/S0907444909052925 · DOI · Paper page
  55. P Emsley, 2004, Coot: model-building tools for molecular graphics., Acta Crystallogr D Biol Crystallogr, 60, 2126, 10.1107/S0907444904019158 · DOI · Paper page
  56. L Potterton, 2004, Developments in the CCP4 molecular-graphics project., Acta Cryst D, 60, 2288, 10.1107/S0907444904023716 · DOI
  57. J Marley, 2001, A method for efficient isotopic labeling of recombinant proteins., J Biomol NMR, 20, 71, 10.1023/A:1011254402785 · DOI
  58. S Talluri, 1996, An optimized 3D NOESY-HSQC., J Magn Reson B, 112, 200, 10.1006/jmrb.1996.0132 · DOI
  59. P Schanda, 2005, SOFAST-HMQC experiments for recording two-dimensional heteronuclear correlation spectra of proteins within a few seconds., J Biomol NMR, 33, 199, 10.1007/s10858-005-4425-x · DOI
  60. F Delaglio, 1995, NMRPipe: a multidimensional spectral processing system based on UNIX pipes., J Biomol NMR, 6, 277, 10.1007/BF00197809 · DOI
  61. C Bartels, 1995, The program XEASY for computer-supported NMR spectral analysis of biological macromolecules., J Biol NMR, 5, 1, 10.1007/BF00417486 · DOI
  62. M Ruckert, 2000, Alignment of biological macromolecules in novel nonionic liquid crystalline media for NMR experiments., Journal of the American Chemical Society, 122, 7793, 10.1021/ja001068h · DOI
  63. M Ottiger, 1998, Measurement of J and dipolar couplings from simplified two-dimensional NMR spectra., J Magn Reson, 131, 373, 10.1006/jmre.1998.1361 · DOI
  64. G Zhu, 2000, Protein dynamics measurements by TROSY-based NMR experiments., Journal of Magnetic Resonance, 143, 423, 10.1006/jmre.2000.2022 · DOI
  65. NA Farrow, 1994, Backbone Dynamics of a Free and a Phosphopeptide-Complexed Src Homology-2 Domain Studied by N-15 Nmr Relaxation., Biochemistry, 33, 5984, 10.1021/bi00185a040 · DOI
  66. EJ d'Auvergne, 2008, Optimisation of NMR dynamic models II. A new methodology for the dual optimisation of the model-free parameters and the Brownian rotational diffusion tensor., J Biomol NMR, 40, 121, 10.1007/s10858-007-9213-3 · DOI

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Metadata

Authors
Swarbrick, J. D., Shaw, D. J., Chhabra, S., Ghai, R., Valkov, E., Norwood, S. J., Seaman, M. N. J., & Collins, B. M.
Venue
PLoS ONE
Published
2011-05-24
Volume
6
Issue
5
Pages
e20420
ISSN
1932-6203
Cited by
59
References
3
Language
en

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