Architecture of the linker-scaffold in the nuclear pore

Petrovic, Stefan; Samanta?, Dipanjan; Perriches?, Thibaud; Bley, Christopher J.; Thierbach, Karsten; Brown, Bonnie; Nie, Si; Mobbs, George W.; Stevens, Taylor A.; Liu, Xiaoyu; Tomaleri, Giovani Pinton; Schaus, Lucas; Hoelz, Andre

doi:10.1126/science.abm9798

Title: Architecture of the linker-scaffold in the nuclear pore

Journal Article · 01 June 2022 · Science

DOI:https://doi.org/10.1126/science.abm9798· OSTI ID:1901105

Petrovic, Stefan; Samanta?, Dipanjan; Perriches?, Thibaud; Bley, Christopher J.; Thierbach, Karsten; Brown, Bonnie; Nie, Si; Mobbs, George W.; Stevens, Taylor A.; Liu, Xiaoyu; Tomaleri, Giovani Pinton; Schaus, Lucas; Hoelz, Andre

Cite

Export

Save

Research Organization:: Argonne National Laboratory (ANL), Argonne, IL (United States). Advanced Photon Source (APS)

Sponsoring Organization:: DOE - Office Of Science; National Institutes of Health (NIH)

OSTI ID:: 1901105

Journal Information:: Science, Vol. 376

Country of Publication:: United States

Language:: ENGLISH

References (134)

The Structure of the Nuclear Pore Complex Hoelz, André; Debler, Erik W.; Blobel, Günter Annual Review of Biochemistry, Vol. 80, Issue 1 https://doi.org/10.1146/annurev-biochem-060109-151030	journal	July 2011
The Structure of the Nuclear Pore Complex (An Update) Lin, Daniel H.; Hoelz, André Annual Review of Biochemistry, Vol. 88, Issue 1 https://doi.org/10.1146/annurev-biochem-062917-011901	journal	June 2019
Structure and Assembly of the Nuclear Pore Complex Hampoelz, Bernhard; Andres-Pons, Amparo; Kastritis, Panagiotis Annual Review of Biophysics, Vol. 48, Issue 1 https://doi.org/10.1146/annurev-biophys-052118-115308	journal	May 2019
The Nuclear Pore Complex as a Flexible and Dynamic Gate Knockenhauer, Kevin E.; Schwartz, Thomas U. Cell, Vol. 164, Issue 6 https://doi.org/10.1016/j.cell.2016.01.034	journal	March 2016
Gene Regulation by Nucleoporins and Links to Cancer Köhler, Alwin; Hurt, Ed Molecular Cell, Vol. 38, Issue 1 https://doi.org/10.1016/j.molcel.2010.01.040	journal	April 2010
Viral Subversion of Nucleocytoplasmic Trafficking: Viral Subversion of Nucleocytoplasmic Trafficking Yarbrough, Melanie L.; Mata, Miguel A.; Sakthivel, Ramanavelan Traffic, Vol. 15, Issue 2 https://doi.org/10.1111/tra.12137	journal	December 2013
Nuclear envelope permeability Paine, Philip L.; Moore, Leonard C.; Horowitz, Samuel B. Nature, Vol. 254, Issue 5496 https://doi.org/10.1038/254109a0	journal	March 1975
Protein migration into nuclei. I. Frog oocyte nuclei in vivo accumulate microinjected histones, allow entry to small proteins, and exclude large proteins. Bonner, W. M. Journal of Cell Biology, Vol. 64, Issue 2 https://doi.org/10.1083/jcb.64.2.421	journal	February 1975
Simple rules for passive diffusion through the nuclear pore complex Timney, Benjamin L.; Raveh, Barak; Mironska, Roxana The Journal of Cell Biology, Vol. 215, Issue 1 https://doi.org/10.1083/jcb.201601004	journal	October 2016
Nuclear import by karyopherin-βs: Recognition and inhibition Chook, Yuh Min; Süel, Katherine E. Biochimica et Biophysica Acta (BBA) - Molecular Cell Research, Vol. 1813, Issue 9 https://doi.org/10.1016/j.bbamcr.2010.10.014	journal	September 2011
Structural Biology of Nucleocytoplasmic Transport Cook, Atlanta; Bono, Fulvia; Jinek, Martin Annual Review of Biochemistry, Vol. 76, Issue 1 https://doi.org/10.1146/annurev.biochem.76.052705.161529	journal	June 2007
Plasticity of an Ultrafast Interaction between Nucleoporins and Nuclear Transport Receptors Milles, Sigrid; Mercadante, Davide; Aramburu, Iker Valle Cell, Vol. 163, Issue 3 https://doi.org/10.1016/j.cell.2015.09.047	journal	October 2015
The Three-Dimensional Structure of the Autoproteolytic, Nuclear Pore-Targeting Domain of the Human Nucleoporin Nup98 Hodel, Alec E.; Hodel, Mary R.; Griffis, Eric R. Molecular Cell, Vol. 10, Issue 2 https://doi.org/10.1016/S1097-2765(02)00589-0	journal	August 2002
Structural and functional analysis of Nup133 domains reveals modular building blocks of the nuclear pore complex Berke, Ian C.; Boehmer, Thomas; Blobel, Günter The Journal of Cell Biology, Vol. 167, Issue 4 https://doi.org/10.1083/jcb.200408109	journal	November 2004
Architecture of a Coat for the Nuclear Pore Membrane Hsia, Kuo-Chiang; Stavropoulos, Pete; Blobel, Günter Cell, Vol. 131, Issue 7 https://doi.org/10.1016/j.cell.2007.11.038	journal	December 2007
Structural and Functional Studies of Nup107/Nup133 Interaction and Its Implications for the Architecture of the Nuclear Pore Complex Boehmer, Thomas; Jeudy, Sandra; Berke, Ian C. Molecular Cell, Vol. 30, Issue 6 https://doi.org/10.1016/j.molcel.2008.04.022	journal	June 2008
Structural Evidence for Common Ancestry of the Nuclear Pore Complex and Vesicle Coats Brohawn, S. G.; Leksa, N. C.; Spear, E. D. Science, Vol. 322, Issue 5906 https://doi.org/10.1126/science.1165886	journal	November 2008
A Fence-like Coat for the Nuclear Pore Membrane Debler, Erik W.; Ma, Yingli; Seo, Hyuk-Soo Molecular Cell, Vol. 32, Issue 6 https://doi.org/10.1016/j.molcel.2008.12.001	journal	December 2008
Molecular architecture of the Nup84–Nup145C–Sec13 edge element in the nuclear pore complex lattice Brohawn, Stephen G.; Schwartz, Thomas U. Nature Structural & Molecular Biology, Vol. 16, Issue 11 https://doi.org/10.1038/nsmb.1713	journal	October 2009
The Structure of the Scaffold Nucleoporin Nup120 Reveals a New and Unexpected Domain Architecture Leksa, Nina C.; Brohawn, Stephen G.; Schwartz, Thomas U. Structure, Vol. 17, Issue 8 https://doi.org/10.1016/j.str.2009.06.003	journal	August 2009
Structure of a trimeric nucleoporin complex reveals alternate oligomerization states Nagy, V.; Hsia, K. -C.; Debler, E. W. Proceedings of the National Academy of Sciences, Vol. 106, Issue 42 https://doi.org/10.1073/pnas.0909373106	journal	October 2009
Structural and functional analysis of Nup120 suggests ring formation of the Nup84 complex Seo, H. -S.; Ma, Y.; Debler, E. W. Proceedings of the National Academy of Sciences, Vol. 106, Issue 34 https://doi.org/10.1073/pnas.0907453106	journal	August 2009
Architectural Nucleoporins Nup157/170 and Nup133 Are Structurally Related and Descend from a Second Ancestral Element Whittle, James R. R.; Schwartz, Thomas U. Journal of Biological Chemistry, Vol. 284, Issue 41 https://doi.org/10.1074/jbc.M109.023580	journal	August 2009
Molecular basis for Nup37 and ELY5/ELYS recruitment to the nuclear pore complex Bilokapic, S.; Schwartz, T. U. Proceedings of the National Academy of Sciences, Vol. 109, Issue 38 https://doi.org/10.1073/pnas.1205151109	journal	September 2012
Structural and Functional Studies of the 252 kDa Nucleoporin ELYS Reveal Distinct Roles for Its Three Tethered Domains Bilokapic, Silvija; Schwartz, Thomas U. Structure, Vol. 21, Issue 4 https://doi.org/10.1016/j.str.2013.02.006	journal	April 2013
Atomic structure of the Y complex of the nuclear pore Kelley, Kotaro; Knockenhauer, Kevin E.; Kabachinski, Greg Nature Structural & Molecular Biology, Vol. 22, Issue 5 https://doi.org/10.1038/nsmb.2998	journal	March 2015
Architecture of the fungal nuclear pore inner ring complex Stuwe, Tobias; Bley, Christopher J.; Thierbach, Karsten Science, Vol. 350, Issue 6256 https://doi.org/10.1126/science.aac9176	journal	August 2015
Architecture of the nuclear pore complex coat Stuwe, T.; Correia, A. R.; Lin, D. H. Science, Vol. 347, Issue 6226 https://doi.org/10.1126/science.aaa4136	journal	February 2015
Crystal structure of human nuclear pore complex component NUP43 Xu, Chao; Li, Zhihong; He, Hao FEBS Letters, Vol. 589, Issue 21 https://doi.org/10.1016/j.febslet.2015.09.008	journal	September 2015
Toward the atomic structure of the nuclear pore complex: when top down meets bottom up Hoelz, André; Glavy, Joseph S.; Beck, Martin Nature Structural & Molecular Biology, Vol. 23, Issue 7 https://doi.org/10.1038/nsmb.3244	journal	June 2016
Integrated Structural Analysis of the Human Nuclear Pore Complex Scaffold Bui, Khanh Huy; von Appen, Alexander; DiGuilio, Amanda L. Cell, Vol. 155, Issue 6 https://doi.org/10.1016/j.cell.2013.10.055	journal	December 2013
Linker Nups connect the nuclear pore complex inner ring with the outer ring and transport channel Fischer, Jessica; Teimer, Roman; Amlacher, Stefan Nature Structural & Molecular Biology, Vol. 22, Issue 10 https://doi.org/10.1038/nsmb.3084	journal	September 2015
Molecular architecture of the inner ring scaffold of the human nuclear pore complex Kosinski, J.; Mosalaganti, S.; von Appen, A. Science, Vol. 352, Issue 6283 https://doi.org/10.1126/science.aaf0643	journal	April 2016
Architecture of the symmetric core of the nuclear pore Lin, D. H.; Stuwe, T.; Schilbach, S. Science, Vol. 352, Issue 6283 https://doi.org/10.1126/science.aaf1015	journal	April 2016
In-cell architecture of the nuclear pore and snapshots of its turnover Allegretti, Matteo; Zimmerli, Christian E.; Rantos, Vasileios Nature, Vol. 586, Issue 7831 https://doi.org/10.1038/s41586-020-2670-5	journal	September 2020
Integrative structure and functional anatomy of a nuclear pore complex Kim, Seung Joong; Fernandez-Martinez, Javier; Nudelman, Ilona Nature, Vol. 555, Issue 7697 https://doi.org/10.1038/nature26003	journal	March 2018
In situ structural analysis of the human nuclear pore complex von Appen, Alexander; Kosinski, Jan; Sparks, Lenore Nature, Vol. 526, Issue 7571 https://doi.org/10.1038/nature15381	journal	September 2015
Yeast Nup84-Nup133 complex structure details flexibility and reveals conservation of the membrane anchoring ALPS motif Nordeen, Sarah A.; Turman, Daniel L.; Schwartz, Thomas U. Nature Communications, Vol. 11, Issue 1 https://doi.org/10.1038/s41467-020-19885-5	journal	November 2020
Insight into Structure and Assembly of the Nuclear Pore Complex by Utilizing the Genome of a Eukaryotic Thermophile Amlacher, Stefan; Sarges, Phillip; Flemming, Dirk Cell, Vol. 146, Issue 2 https://doi.org/10.1016/j.cell.2011.06.039	journal	July 2011
Evidence for an evolutionary relationship between the large adaptor nucleoporin Nup192 and karyopherins Stuwe, T.; Lin, D. H.; Collins, L. N. Proceedings of the National Academy of Sciences, Vol. 111, Issue 7 https://doi.org/10.1073/pnas.1311081111	journal	February 2014
Crystal structure of the metazoan Nup62•Nup58•Nup54 nucleoporin complex Chug, Hema; Trakhanov, Sergei; Hülsmann, Bastian B. Science, Vol. 350, Issue 6256 https://doi.org/10.1126/science.aac7420	journal	August 2015
In situ architecture of the algal nuclear pore complex Mosalaganti, Shyamal; Kosinski, Jan; Albert, Sahradha Nature Communications, Vol. 9, Issue 1 https://doi.org/10.1038/s41467-018-04739-y	journal	June 2018
The cellular environment shapes the nuclear pore complex architecture Schuller, Anthony P.; Wojtynek, Matthias; Mankus, David Nature, Vol. 598, Issue 7882 https://doi.org/10.1038/s41586-021-03985-3	journal	October 2021
Cone-shaped HIV-1 capsids are transported through intact nuclear pores Zila, Vojtech; Margiotta, Erica; Turoňová, Beata Cell, Vol. 184, Issue 4 https://doi.org/10.1016/j.cell.2021.01.025	journal	February 2021
Nuclear pores dilate and constrict in cellulo Zimmerli, Christian E.; Allegretti, Matteo; Rantos, Vasileios Science, Vol. 374, Issue 6573 https://doi.org/10.1126/science.abd9776	journal	December 2021
AI-based structure prediction empowers integrative structural analysis of human nuclear pores Mosalaganti, Shyamal; Obarska-Kosinska, Agnieszka; Siggel, Marc Science, Vol. 376, Issue 6598 https://doi.org/10.1126/science.abm9506	journal	June 2022
Structure, Dynamics, Evolution, and Function of a Major Scaffold Component in the Nuclear Pore Complex Sampathkumar, Parthasarathy; Kim, Seung Joong; Upla, Paula Structure, Vol. 21, Issue 4 https://doi.org/10.1016/j.str.2013.02.005	journal	April 2013
Nup116p and Nup100p are interchangeable through a conserved motif which constitutes a docking site for the mRNA transport factor Gle2p Bailer, S. M. The EMBO Journal, Vol. 17, Issue 4 https://doi.org/10.1093/emboj/17.4.1107	journal	February 1998
Natively Unfolded Nucleoporins Gate Protein Diffusion across the Nuclear Pore Complex Patel, Samir S.; Belmont, Brian J.; Sante, Joshua M. Cell, Vol. 129, Issue 1 https://doi.org/10.1016/j.cell.2007.01.044	journal	April 2007
Structural and functional analysis of an essential nucleoporin heterotrimer on the cytoplasmic face of the nuclear pore complex Yoshida, Kimihisa; Seo, Hyuk-Soo; Debler, Erik W. Proceedings of the National Academy of Sciences, Vol. 108, Issue 40 https://doi.org/10.1073/pnas.1112846108	journal	September 2011
Identification of the NovelNup188-brr7Allele in a Screen for Cold-Sensitive mRNA Export Mutants inSaccharomyces cerevisiae de Bruyn Kops, Anne; Guthrie, Christine G3 Genes\|Genomes\|Genetics, Vol. 8, Issue 9 https://doi.org/10.1534/g3.118.200447	journal	September 2018
The Integral Membrane Protein Pom34p Functionally Links Nucleoporin Subcomplexes Miao, Mi; Ryan, Kathryn J.; Wente, Susan R. Genetics, Vol. 172, Issue 3 https://doi.org/10.1534/genetics.105.052068	journal	March 2006
The yeast nucleoporin Nup188p interacts genetically and physically with the core structures of the nuclear pore complex. Nehrbass, U.; Rout, M. P.; Maguire, S. Journal of Cell Biology, Vol. 133, Issue 6 https://doi.org/10.1083/jcb.133.6.1153	journal	June 1996
Specific Binding of the Karyopherin Kap121p to a Subunit of the Nuclear Pore Complex Containing Nup53p, Nup59p, and Nup170p Marelli, Marcello; Aitchison, John D.; Wozniak, Richard W. Journal of Cell Biology, Vol. 143, Issue 7 https://doi.org/10.1083/jcb.143.7.1813	journal	December 1998
Structural Basis of the Nic96 Subcomplex Organization in the Nuclear Pore Channel Schrader, Nils; Stelter, Philipp; Flemming, Dirk Molecular Cell, Vol. 29, Issue 1 https://doi.org/10.1016/j.molcel.2007.10.022	journal	January 2008
Crystal Structure of Nucleoporin Nic96 Reveals a Novel, Intricate Helical Domain Architecture Jeudy, Sandra; Schwartz, Thomas U. Journal of Biological Chemistry, Vol. 282, Issue 48 https://doi.org/10.1074/jbc.M705479200	journal	September 2007
Architecture of the cytoplasmic face of the nuclear pore Bley, Christopher J.; Nie, Si; Mobbs, George W. Science, Vol. 376, Issue 6598 https://doi.org/10.1126/science.abm9129	journal	June 2022
Structural and functional analysis of mRNA export regulation by the nuclear pore complex Lin, Daniel H.; Correia, Ana R.; Cai, Sarah W. Nature Communications, Vol. 9, Issue 1 https://doi.org/10.1038/s41467-018-04459-3	journal	June 2018
A general amphipathic α-helical motif for sensing membrane curvature Drin, Guillaume; Casella, Jean-François; Gautier, Romain Nature Structural & Molecular Biology, Vol. 14, Issue 2 https://doi.org/10.1038/nsmb1194	journal	January 2007
Role of the Ndc1 interaction network in yeast nuclear pore complex assembly and maintenance Onischenko, Evgeny; Stanton, Leslie H.; Madrid, Alexis S. The Journal of Cell Biology, Vol. 185, Issue 3 https://doi.org/10.1083/jcb.200810030	journal	May 2009
Cell type‐specific nuclear pores: a case in point for context‐dependent stoichiometry of molecular machines Ori, Alessandro; Banterle, Niccolò; Iskar, Murat Molecular Systems Biology, Vol. 9, Issue 1 https://doi.org/10.1038/msb.2013.4	journal	January 2013
Nup98 Is a Mobile Nucleoporin with Transcription-dependent Dynamics Griffis, Eric R.; Altan, Nihal; Lippincott-Schwartz, Jennifer Molecular Biology of the Cell, Vol. 13, Issue 4 https://doi.org/10.1091/mbc.01-11-0538	journal	April 2002
Mapping the dynamic organization of the nuclear pore complex inside single living cells Rabut, Gwénaël; Doye, Valérie; Ellenberg, Jan Nature Cell Biology, Vol. 6, Issue 11 https://doi.org/10.1038/ncb1184	journal	October 2004
Proteomic Analysis of Nucleoporin Interacting Proteins Allen, Nadia P. C.; Huang, Lan; Burlingame, Al Journal of Biological Chemistry, Vol. 276, Issue 31 https://doi.org/10.1074/jbc.M102629200	journal	May 2001
Natively Unfolded FG Repeats Stabilize the Structure of the Nuclear Pore Complex Onischenko, Evgeny; Tang, Jeffrey H.; Andersen, Kasper R. Cell, Vol. 171, Issue 4 https://doi.org/10.1016/j.cell.2017.09.033	journal	November 2017
Allovalency: A Case of Molecular Entanglement Levchenko, Andre Current Biology, Vol. 13, Issue 22 https://doi.org/10.1016/j.cub.2003.10.049	journal	November 2003
Behaviour of intrinsically disordered proteins in protein–protein complexes with an emphasis on fuzziness Olsen, Johan G.; Teilum, Kaare; Kragelund, Birthe B. Cellular and Molecular Life Sciences, Vol. 74, Issue 17 https://doi.org/10.1007/s00018-017-2560-7	journal	June 2017
Phosphorylation of Nup98 by Multiple Kinases Is Crucial for NPC Disassembly during Mitotic Entry Laurell, Eva; Beck, Katja; Krupina, Ksenia Cell, Vol. 144, Issue 4 https://doi.org/10.1016/j.cell.2011.01.012	journal	February 2011
Mitotic Disassembly of Nuclear Pore Complexes Involves CDK1- and PLK1-Mediated Phosphorylation of Key Interconnecting Nucleoporins Linder, Monika I.; Köhler, Mario; Boersema, Paul Developmental Cell, Vol. 43, Issue 2 https://doi.org/10.1016/j.devcel.2017.08.020	journal	October 2017
NUP98 gene fusions and hematopoietic malignancies: common themes and new biologic insights Gough, Sheryl M.; Slape, Christopher I.; Aplan, Peter D. Blood, Vol. 118, Issue 24 https://doi.org/10.1182/blood-2011-07-328880	journal	December 2011
Mutations in nuclear pore genes NUP93, NUP205 and XPO5 cause steroid-resistant nephrotic syndrome Braun, Daniela A.; Sadowski, Carolin E.; Kohl, Stefan Nature Genetics, Vol. 48, Issue 4 https://doi.org/10.1038/ng.3512	journal	February 2016
Bi-allelic Loss-of-Function Variants in NUP188 Cause a Recognizable Syndrome Characterized by Neurologic, Ocular, and Cardiac Abnormalities Muir, Alison M.; Cohen, Jennifer L.; Sheppard, Sarah E. The American Journal of Human Genetics, Vol. 106, Issue 5 https://doi.org/10.1016/j.ajhg.2020.03.009	journal	May 2020
Diffusion and retention are major determinants of protein targeting to the inner nuclear membrane Ungricht, Rosemarie; Klann, Michael; Horvath, Peter Journal of Cell Biology, Vol. 209, Issue 5 https://doi.org/10.1083/jcb.201409127	journal	June 2015
Energy- and temperature-dependent transport of integral proteins to the inner nuclear membrane via the nuclear pore Ohba, Tomoyuki; Schirmer, Eric C.; Nishimoto, Takeharu Journal of Cell Biology, Vol. 167, Issue 6 https://doi.org/10.1083/jcb.200409149	journal	December 2004
System analysis shows distinct mechanisms and common principles of nuclear envelope protein dynamics Zuleger, Nikolaj; Kelly, David A.; Richardson, A. Christine Journal of Cell Biology, Vol. 193, Issue 1 https://doi.org/10.1083/jcb.201009068	journal	March 2011
Karyopherin-mediated import of integral inner nuclear membrane proteins King, Megan C.; Lusk, C.; Blobel, Günter Nature, Vol. 442, Issue 7106 https://doi.org/10.1038/nature05075	journal	August 2006
Long Unfolded Linkers Facilitate Membrane Protein Import Through the Nuclear Pore Complex Meinema, A. C.; Laba, J. K.; Hapsari, R. A. Science, Vol. 333, Issue 6038 https://doi.org/10.1126/science.1205741	journal	June 2011
Distinctive Properties of the Nuclear Localization Signals of Inner Nuclear Membrane Proteins Heh1 and Heh2 Lokareddy, Ravi K.; Hapsari, Rizqiya A.; van Rheenen, Mathilde Structure, Vol. 23, Issue 7 https://doi.org/10.1016/j.str.2015.04.017	journal	July 2015
Molecular architecture of the luminal ring of the Xenopus laevis nuclear pore complex Zhang, Yanqing; Li, Sai; Zeng, Chao Cell Research, Vol. 30, Issue 6 https://doi.org/10.1038/s41422-020-0320-y	journal	May 2020
Force Triggers YAP Nuclear Entry by Regulating Transport across Nuclear Pores Elosegui-Artola, Alberto; Andreu, Ion; Beedle, Amy E. M. Cell, Vol. 171, Issue 6 https://doi.org/10.1016/j.cell.2017.10.008	journal	November 2017
A Saturated FG-Repeat Hydrogel Can Reproduce the Permeability Properties of Nuclear Pore Complexes Frey, Steffen; Görlich, Dirk Cell, Vol. 130, Issue 3 https://doi.org/10.1016/j.cell.2007.06.024	journal	August 2007
A Conserved Biogenesis Pathway for Nucleoporins: Proteolytic Processing of a 186-Kilodalton Precursor Generates Nup98 and the Novel Nucleoporin, Nup96 Fontoura, Beatriz M. A.; Blobel, Günter; Matunis, Michael J. The Journal of Cell Biology, Vol. 144, Issue 6 https://doi.org/10.1083/jcb.144.6.1097	journal	March 1999
Interaction between the Shuttling mRNA Export Factor Gle1 and the Nucleoporin hCG1: A Conserved Mechanism in the Export of Hsp70 mRNA Kendirgi, Frederic; Rexer, Deborah J.; Alcázar-Román, Abel R. Molecular Biology of the Cell, Vol. 16, Issue 9 https://doi.org/10.1091/mbc.e04-11-0998	journal	September 2005
Co-expression of protein complexes in prokaryotic and eukaryotic hosts: experimental procedures, database tracking and case studies Romier, Christophe; Ben Jelloul, Marouane; Albeck, Shira Acta Crystallographica Section D Biological Crystallography, Vol. 62, Issue 10 https://doi.org/10.1107/S0907444906031003	journal	September 2006
Preparation of selenomethionyl proteins for phase determination Doublié, Sylvie Methods in Enzymology https://doi.org/10.1016/S0076-6879(97)76075-0 p. 523-530	book	January 1997
Multiangle Light Scattering: The Basic Tool for Macromolecular Characterization Wyatt, Philip J. Instrumentation Science & Technology, Vol. 25, Issue 1 https://doi.org/10.1080/10739149709351443	journal	February 1997
XDS Kabsch, Wolfgang Acta Crystallographica Section D Biological Crystallography, Vol. 66, Issue 2 https://doi.org/10.1107/S0907444909047337	journal	January 2010
Features and development of Coot Emsley, P.; Lohkamp, B.; Scott, W. G. Acta Crystallographica Section D Biological Crystallography, Vol. 66, Issue 4 https://doi.org/10.1107/S0907444910007493	journal	March 2010
Macromolecular structure determination using X-rays, neutrons and electrons: recent developments in Phenix Liebschner, Dorothee; Afonine, Pavel V.; Baker, Matthew L. Acta Crystallographica Section D Structural Biology, Vol. 75, Issue 10 https://doi.org/10.1107/S2059798319011471	journal	October 2019
MolProbity: More and better reference data for improved all-atom structure validation: PROTEIN SCIENCE.ORG Williams, Christopher J.; Headd, Jeffrey J.; Moriarty, Nigel W. Protein Science, Vol. 27, Issue 1 https://doi.org/10.1002/pro.3330	journal	November 2017
DIALS : implementation and evaluation of a new integration package Winter, Graeme; Waterman, David G.; Parkhurst, James M. Acta Crystallographica Section D Structural Biology, Vol. 74, Issue 2 https://doi.org/10.1107/S2059798317017235	journal	February 2018
Overview of the CCP 4 suite and current developments Winn, Martyn D.; Ballard, Charles C.; Cowtan, Kevin D. Acta Crystallographica Section D Biological Crystallography, Vol. 67, Issue 4 https://doi.org/10.1107/S0907444910045749	journal	March 2011
Optimal description of a protein structure in terms of multiple groups undergoing TLS motion Painter, Jay; Merritt, Ethan A. Acta Crystallographica Section D Biological Crystallography, Vol. 62, Issue 4 https://doi.org/10.1107/S0907444906005270	journal	March 2006
Phaser crystallographic software McCoy, Airlie J.; Grosse-Kunstleve, Ralf W.; Adams, Paul D. Journal of Applied Crystallography, Vol. 40, Issue 4 https://doi.org/10.1107/S0021889807021206	journal	July 2007
WEBnm@ v2.0: Web server and services for comparing protein flexibility Tiwari, Sandhya P.; Fuglebakk, Edvin; Hollup, Siv M. BMC Bioinformatics, Vol. 15, Issue 1 https://doi.org/10.1186/s12859-014-0427-6	journal	December 2014
Iterative model building, structure refinement and density modification with the PHENIX AutoBuild wizard Terwilliger, Thomas C.; Grosse-Kunstleve, Ralf W.; Afonine, Pavel V. Acta Crystallographica Section D Biological Crystallography, Vol. 64, Issue 1 https://doi.org/10.1107/S090744490705024X	journal	December 2007
SOLVE and RESOLVE: automated structure solution, density modification and model building Terwilliger, Thomas Journal of Synchrotron Radiation, Vol. 11, Issue 1 https://doi.org/10.1107/S0909049503023938	journal	November 2003
Automated electron microscope tomography using robust prediction of specimen movements Mastronarde, David N. Journal of Structural Biology, Vol. 152, Issue 1 https://doi.org/10.1016/j.jsb.2005.07.007	journal	October 2005
Collection, pre-processing and on-the-fly analysis of data for high-resolution, single-particle cryo-electron microscopy Thompson, Rebecca F.; Iadanza, Matthew G.; Hesketh, Emma L. Nature Protocols, Vol. 14, Issue 1 https://doi.org/10.1038/s41596-018-0084-8	journal	November 2018
MotionCor2: anisotropic correction of beam-induced motion for improved cryo-electron microscopy Zheng, Shawn Q.; Palovcak, Eugene; Armache, Jean-Paul Nature Methods, Vol. 14, Issue 4 https://doi.org/10.1038/nmeth.4193	journal	February 2017
cryoSPARC: algorithms for rapid unsupervised cryo-EM structure determination Punjani, Ali; Rubinstein, John L.; Fleet, David J. Nature Methods, Vol. 14, Issue 3 https://doi.org/10.1038/nmeth.4169	journal	February 2017
New tools for automated high-resolution cryo-EM structure determination in RELION-3 Zivanov, Jasenko; Nakane, Takanori; Forsberg, Björn O. eLife, Vol. 7 https://doi.org/10.7554/eLife.42166	journal	November 2018
RELION: Implementation of a Bayesian approach to cryo-EM structure determination Scheres, Sjors H. W. Journal of Structural Biology, Vol. 180, Issue 3, p. 519-530 https://doi.org/10.1016/j.jsb.2012.09.006	journal	December 2012
Addressing preferred specimen orientation in single-particle cryo-EM through tilting Tan, Yong Zi; Baldwin, Philip R.; Davis, Joseph H. Nature Methods, Vol. 14, Issue 8 https://doi.org/10.1038/nmeth.4347	journal	July 2017
UCSF Chimera?A visualization system for exploratory research and analysis Pettersen, Eric F.; Goddard, Thomas D.; Huang, Conrad C. Journal of Computational Chemistry, Vol. 25, Issue 13 https://doi.org/10.1002/jcc.20084	journal	January 2004
Real-space refinement in PHENIX for cryo-EM and crystallography Afonine, Pavel V.; Poon, Billy K.; Read, Randy J. Acta Crystallographica Section D Structural Biology, Vol. 74, Issue 6 https://doi.org/10.1107/S2059798318006551	journal	May 2018
EMRinger: side chain–directed model and map validation for 3D cryo-electron microscopy Barad, Benjamin A.; Echols, Nathaniel; Wang, Ray Yu-Ruei Nature Methods, Vol. 12, Issue 10 https://doi.org/10.1038/nmeth.3541	journal	August 2015
Non-uniform refinement: adaptive regularization improves single-particle cryo-EM reconstruction Punjani, Ali; Zhang, Haowei; Fleet, David J. Nature Methods, Vol. 17, Issue 12 https://doi.org/10.1038/s41592-020-00990-8	journal	November 2020
Automated map sharpening by maximization of detail and connectivity Terwilliger, Thomas C.; Sobolev, Oleg V.; Afonine, Pavel V. Acta Crystallographica Section D Structural Biology, Vol. 74, Issue 6 https://doi.org/10.1107/S2059798318004655	journal	May 2018
Model-based local density sharpening of cryo-EM maps Jakobi, Arjen J.; Wilmanns, Matthias; Sachse, Carsten eLife, Vol. 6 https://doi.org/10.7554/eLife.27131	journal	October 2017
PROMALS3D: a tool for multiple protein sequence and structure alignments Pei, Jimin; Kim, Bong-Hyun; Grishin, Nick V. Nucleic Acids Research, Vol. 36, Issue 7 https://doi.org/10.1093/nar/gkn072	journal	February 2008
MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability Katoh, K.; Standley, D. M. Molecular Biology and Evolution, Vol. 30, Issue 4 https://doi.org/10.1093/molbev/mst010	journal	January 2013
ALSCRIPT: a tool to format multiple sequence alignments Barton, Geoffrey J. "Protein Engineering, Design and Selection", Vol. 6, Issue 1 https://doi.org/10.1093/protein/6.1.37	journal	January 1993
A system of shuttle vectors and yeast host strains designed for efficient manipulation of DNA in Saccharomyces cerevisiae. Sikorski, R. S.; Hieter, P. Genetics, Vol. 122, Issue 1 https://doi.org/10.1093/genetics/122.1.19	journal	May 1989
A versatile toolbox for PCR-based tagging of yeast genes: new fluorescent proteins, more markers and promoter substitution cassettes Janke, Carsten; Magiera, Maria M.; Rathfelder, Nicole Yeast, Vol. 21, Issue 11 https://doi.org/10.1002/yea.1142	journal	August 2004
Additional modules for versatile and economical PCR-based gene deletion and modification in Saccharomyces cerevisiae Longtine, Mark S.; Mckenzie III, Amos; Demarini, Douglas J. Yeast, Vol. 14, Issue 10 https://doi.org/10.1002/(SICI)1097-0061(199807)14:10<953::AID-YEA293>3.0.CO;2-U	journal	July 1998
Transducible TAT-HA fusogenic peptide enhances escape of TAT-fusion proteins after lipid raft macropinocytosis Wadia, Jehangir S.; Stan, Radu V.; Dowdy, Steven F. Nature Medicine, Vol. 10, Issue 3 https://doi.org/10.1038/nm996	journal	February 2004
Two nuclear mutations that block mitochondrial protein import in yeast. Yaffe, M. P.; Schatz, G. Proceedings of the National Academy of Sciences, Vol. 81, Issue 15 https://doi.org/10.1073/pnas.81.15.4819	journal	August 1984
Ubiquitin-associated domain of Mex67 synchronizes recruitment of the mRNA export machinery with transcription Gwizdek, C.; Iglesias, N.; Rodriguez, M. S. Proceedings of the National Academy of Sciences, Vol. 103, Issue 44 https://doi.org/10.1073/pnas.0607941103	journal	October 2006
Structure of the cytoplasmic ring of the Xenopus laevis nuclear pore complex by cryo-electron microscopy single particle analysis Huang, Gaoxingyu; Zhang, Yanqing; Zhu, Xuechen Cell Research, Vol. 30, Issue 6 https://doi.org/10.1038/s41422-020-0319-4	journal	May 2020
Statistical mechanics of chain molecules Flory, Paul. J.; Volkenstein, M. Biopolymers, Vol. 8, Issue 5 https://doi.org/10.1002/bip.1969.360080514	journal	November 1969
Quantitative Understanding of the Energy Transfer between Fluorescent Proteins Connected via Flexible Peptide Linkers Evers, Toon H.; van Dongen, Elisabeth M. W. M.; Faesen, Alex C. Biochemistry, Vol. 45, Issue 44 https://doi.org/10.1021/bi061288t	journal	November 2006
Molecular Basis for the Anchoring of Proto-Oncoprotein Nup98 to the Cytoplasmic Face of the Nuclear Pore Complex Stuwe, Tobias; Schada von Borzyskowski, Lennart; Davenport, Andrew M. Journal of Molecular Biology, Vol. 419, Issue 5 https://doi.org/10.1016/j.jmb.2012.03.024	journal	June 2012
Assembly and Preferential Localization of Nup116p on the Cytoplasmic Face of the Nuclear Pore Complex by Interaction with Nup82p Ho, Albert K.; Shen, Tian Xiang; Ryan, Kathryn J. Molecular and Cellular Biology, Vol. 20, Issue 15 https://doi.org/10.1128/MCB.20.15.5736-5748.2000	journal	August 2000
Two functionally distinct domains generated by invivo cleavage of Nup145p: a novel biogenesis pathway for nucleoporins Teixeira, M. T. The EMBO Journal, Vol. 16, Issue 16 https://doi.org/10.1093/emboj/16.16.5086	journal	August 1997
NUP145 encodes a novel yeast glycine-leucine-phenylalanine-glycine (GLFG) nucleoporin required for nuclear envelope structure. Wente, S. R.; Blobel, G. Journal of Cell Biology, Vol. 125, Issue 5 https://doi.org/10.1083/jcb.125.5.955	journal	June 1994
Stoichiometry and compositional plasticity of the yeast nuclear pore complex revealed by quantitative fluorescence microscopy Rajoo, Sasikumar; Vallotton, Pascal; Onischenko, Evgeny Proceedings of the National Academy of Sciences, Vol. 115, Issue 17 https://doi.org/10.1073/pnas.1719398115	journal	April 2018
The Yeast Nuclear Pore Complex: Composition, Architecture, and Transport Mechanism Rout, Michael P.; Aitchison, John D.; Suprapto, Adisetyantari The Journal of Cell Biology, Vol. 148, Issue 4 https://doi.org/10.1083/jcb.148.4.635	journal	February 2000
Karyopherins in nuclear pore biogenesis: a role for Kap121p in the assembly of Nup53p into nuclear pore complexes Lusk, C. Patrick; Makhnevych, Taras; Marelli, Marcello The Journal of Cell Biology, Vol. 159, Issue 2 https://doi.org/10.1083/jcb.200203079	journal	October 2002
Fiji: an open-source platform for biological-image analysis Schindelin, Johannes; Arganda-Carreras, Ignacio; Frise, Erwin Nature Methods, Vol. 9, Issue 7 https://doi.org/10.1038/nmeth.2019	journal	June 2012
Multiple sequence alignment with Clustal X Jeanmougin, François; Thompson, Julie D.; Gouy, Manolo Trends in Biochemical Sciences, Vol. 23, Issue 10 https://doi.org/10.1016/S0968-0004(98)01285-7	journal	October 1998
Multifunctional yeast high-copy-number shuttle vectors Christianson, Thomas W.; Sikorski, Robert S.; Dante, Michael Gene, Vol. 110, Issue 1 https://doi.org/10.1016/0378-1119(92)90454-W	journal	January 1992
Structure and Function of the Nuclear Pore Complex Cytoplasmic mRNA Export Platform Fernandez-Martinez, Javier; Kim, Seung Joong; Shi, Yi Cell, Vol. 167, Issue 5 https://doi.org/10.1016/j.cell.2016.10.028	journal	November 2016
Structure of a Yeast Dyn2-Nup159 Complex and Molecular Basis for Dynein Light Chain-Nuclear Pore Interaction Romes, Erin M.; Tripathy, Ashutosh; Slep, Kevin C. Journal of Biological Chemistry, Vol. 287, Issue 19 https://doi.org/10.1074/jbc.M111.336172	journal	May 2012

Similar Records

Metal inorganic frameworks : dynamic flexible architecture with extended pore order built from [Se{sub 3}]{sup 2-} linkers and [Re{sub 6}Se{sub 6}Br{sub 8}]{sup 2-} clusters.

Journal Article · 2010 · J. Am. Chem. Soc. · OSTI ID:1901105

Ding, N; Armatas, G S; Kanatzidis, M G

Structure, Dynamics, Evolution, and Function of a Major Scaffold Component in the Nuclear Pore Complex

Journal Article · 2013 · Structure · OSTI ID:1901105

Sampathkumar, Parthasarathy; Kim, Seung Joong; Upla, Paula; +16 more

Structure, Dynamics, Evolution, and Function of a Major Scaffold Component in the Nuclear Pore Complex

Journal Article · 2013 · Structure · OSTI ID:1901105

Sampathkumar, P.; Kim, S.; Upla, P.; +6 more

Title: Architecture of the linker-scaffold in the nuclear pore

Citation Formats

References (134)

Similar Records

Related Subjects