research groups Elena Conti Structure Gallery Structure Gallery Yeast Cytoplasmic Exosome-Ski2 Complex Degrading a RNA Substrate Keidel A et al. Mol Cell. 2023pdb entries:8qcf (Exo10-Ski7-Ski2)8qcb (Ski7N bound open Ski2∆arch38)8qca (Ski7N bound closed Ski2∆arch38)8q9t (apo Ski238) Human CNOT1-10-11 Module Mauxion F, Basquin J et al. Cell Reports. 2022pdb entries:8bfi (CNOT1N-CNOT10-CNOT11)8bfh (CNOT11C)8bfj (CNOT11C-GGNBP2(638-673)) Nuclear Exosome Targeting Complex (NEXT) Gerlach P et al. Mol Cell. 2022pdb entries:7z4y (Overall reconstruction)7z52 (Single Mtr4)7z4z (dimerization module) RNA-bound Human Ski2-3-8 Kögel A et al. Mol Cell. 2022pdb entries:7qdr (Apo closed state)7qds (Apo open state)7qdy (RNA-bound)7qdz (80S-bound closed state)7qe0 (80S-bound open state) Inhibitor-bound Human Smg1-8-9 Langer LM et al. eLife. 2021pdb entries:7pw4 (Smg189 with Smg1i)7pw5 (Smg189 with Smg1i and AlphaFold predicted Smg8-Cter)7pw6 (Smg189 with Smg1i, Smg1 body only)7pw7 (Smg19 with Smg1i)7pw8 (Smg189 with AMPPNP)7pw9 (Smg19 with AMPPNP) Yeast THO-Sub2 complex Schuller SK, Schuller JM et al. eLife. 2020 pdb entries: 7aqo (dimer) 7apx (monomer) Substrate-bound Human Smg1-Smg8-Smg9 Langer LM et al. eLife. 2020 pdb entry: 6z3r Human CWC27-CWC22-eIF4A3 complex Busetto V et al. Nucleic Acids Res. 2020 pdb entry: 6yvh Human Smg1-Smg8-Smg9 Complex Gat Y, Schuller JM et al. Nat Struct Mol Biol. 2019 pdb entry: 6syt Human Mtr4 bound to NVL Lingaraju M et al. Nat. Commun. 2019 pdb entry: 6ro1 Poly(A) RNP bound to yeast Pan2-Pan3 Schäfer IB et al. Cell. 2019 pdb entry: 6r5k Human EXO10 fused to MPP6 Gerlach P, Schuller JM et al. eLife. 2018 pdb entry: 6h25 Yeast Nuclear Exosome Captured on a Maturing Preribosome Schuller JM, Falk S et al. Science. 2018 pdb entries: 6ft6 (preribosome part) 6fsz (exosome part) Nop53-bound Yeast Mtr4 Falk S et al. RNA. 2017 pdb entry: 5ooq Mpp6-bound Yeast Exosome Falk S et al. Cell Rep. 2017 pdb entry: 5okz Yeast Sen1 helicase Leonaitė B, Han Z et al. EMBO J. 2017 pdb entry: 5mzn Smg8-Smg9 complex Li L et al. RNA. 2017 pdb entries: 5nkk (GDP bound) 5nkm (apo) Yeast Ski2-3-8 complex bound to 80S ribosome Schmidt C et al. Science. 2016 pdb entry: 5mc6 RBM7-ZCCHC8 core of the NEXT complex Falk S, Finogenova K et al. Nat Commun. 2016 pdb entries: 5lxr (with Samarium) 5lxy (apo 11-subunit Yeast Cytoplasmic RNA-Exosome including Ski7 Kowalinski E et al. Mol Cell. 2016 pdb entry: 5jea C. elegans Gld2-Rnp8 complex Nakel K et al. RNA. 2016 pdb entry: 5jnb Drosophila MLE in complex with RNA in the transition state Prabu JR, Müller M, et al. Mol Cell. 2015 pdb entry: 5aor Human DDX6 in complex with CNOT1 and 4E-T Ozgur S et al. Cell Rep. 2015 pdb entry: 5anr 12-subunit yeast nuclear exosome bound to single-stranded RNA substrates Makino DL, Schuch B et al. Nature. 2015 pdb entry: 5c0w 12-subunit yeast nuclear exosome bound to structured RNA Makino DL, Schuch B et al. Nature. 2015 pdb entry: 5c0x yeast Rrp6 catalytic domain bound to poly(U) RNA Makino DL, Schuch B et al. Nature. 2015 pdb entry: 5c0y C. elegans Gld2-Gld3 complex Nakel K et al. PNAS. 2015 pdb entry: 4zrl Ski7 loaded with GTP or GDP-Pi Kowalinski E et al. Structure. 2015 pdb entries: 4zkd (GDP-Pi) 4zke (GTP) Not4 ring domain in complex Ubc4 Bhaskar V et al. Structure. 2015 pdb entry: 5aie Not1 C-terminal domain in complex with Not4 Bhaskar V et al. Structure. 2015 pdb entry: 5ajd Rrp6-Rrp47-Mtr4 interaction Schuch B et al. EMBO J. 2014 pdb entries: 4wfd (Rrp6-Rrp47-Mtr4) 4wfc (Rrp6-Rrp47) Pyrococcus furiosus Cmr6 Benda C et al. Mol Cell. 2014 pdb entry: 4w8v Pyrococcus furiosus Cmr4 Benda C et al. Mol Cell. 2014 pdb entry: 4w8w Pyrococcus furiosus Cmr2 Benda C et al. Mol Cell. 2014 pdb entry: 4w8y Pyrococcus furiosus Cmr1 Benda C et al. Mol Cell. 2014 pdb entries: 4w8z (Apo) 4w8x (with GDP) Minimal yeast TRAMP complex Falk S, Weir JR et al. Mol Cell. 2014 pdb entry: 4u4c Thermofilum pendens Csc2 Hrle A et al. RNA Biol. 2014 pdb entry: 4txd TPR domain of Human SMG6 Chakrabarti S et al. Nucleic Acids Res. 2014 pdb entry: 4um2 Yeast Pan2-Pan3 core complex Schäfer IB et al. Nat Struct Mol Biol. 2014 pdb entries: 4q8j(Pan2-Pan3 core) 4q8g(Pan2 pseudoubiquitin-hydrolase domain) 4q8h(Pan2 pseudoubiquitin-hydrolase-RNase module) Human CNOT1 C9BD domain in complex with CNOT9 and bound tryptophan Mathys H, Basquin J et al. Mol Cell. 2014 pdb entries: 4ct7(with tryptophan) 4ct6(without tryptophan) 4cv5(yeast proteins Human CNOT1 MIF4G domain in complex with DDX6 Mathys H, Basquin J et al. Mol Cell. 2014 pdb entry: 4ct4 Human DDX6 Mathys H, Basquin J et al. Mol Cell. 2014 pdb entry: 4ct5 eIF4AIII-CWC22 complex Buchwald G et al. PNAS. 2013 pdb entry: 4c9b Methanopyrus kandleri Csm3 Hrle A, Su AA et al. RNA Biol. 2013 pdb entry: 4n0l Lsm1-7-Pat1 Complex Sharif H, Conti E. Cell Reports. 2013 pdb entry: 4c8q Lsm1-7 Complex Sharif H, Conti E. Cell Reports. 2013 pdb entry: 4c92 Not module of the yeast CCR4-Not complex Bhaskar V et al. Nat Struct Mol Biol. 2013 pdb entry: 4by6 Yeast SKI complex Halbach F et al. Cell. 2013 pdb entry: 4buj Dhh1 in complex with Pat1 or Edc3 Sharif H et al. Nucleic Acids Res. 2013 pdb entries: 4bru (Edc3) 4brw (Pat1) SLIP1 in complex with SLBP or Dbp5 von Moeller H et al. Nucleic Acids Res. 2013 pdb entries: 4jhj (Dbp5) 4jhk (SLBP) 11-subunit yeast exosome bound to RNA Makino DL et al. Nature. 2013 pdb entry: 4ifd Archaeal exosome in pre-catalytic state Lorentzen E et al. Archaea. 2012 pdb entries: 4ba1 (with inorganic phosphate) 4ba2 (with RNA and inorganic phosphate) Nuclease module of the yeast CCR4-Not complex Basquin J, Roudko VV et al. Mol Cell. 2012 pdb entries: 4b89 (MIF4G domain of NotI) 4b8a (MIF4G domain of NotI with Caf1) 4b8c (Nuclease module of the CCR4-Not complex) Not1 N-terminal domain Basquin J, Roudko VV et al. Mol Cell. 2012 pdb entries: 4b8b Ska core complex Jeyaprakash AA et al. Mol Cell. 2012 pdb entry: 4aj5 ASAP core complex Murachelli AG et al. Nat Struct Mol Biol. 2012 pdb entries: 4a8x (ASAP core) 4a6q (Sap18, I222 form) 4a90 (Sap18, C2 form) Yeast Ski2 RNA helicase Halbach F et al. RNA. 2012 pdb entries: 4a4z (full length) 4a4k (insertion domain) Survivin bound to phosphorylated histone H3 tail or shugoshin 1 N-terminus Jeyaprakash AA et al. Structure. 2011 pdb entries: 4a0i (with human Shugoshin 1 N-terminus) 4a0j (with phosphorylated histone H3 tail, C2 form) 4a0n (with phosphorylated histone H3 tail, I222 form) Helicase domain of human Upf1 Chakrabarti S et al. Mol Cell 2011 pdb entry: 2xzp Helicase domain of human Upf1 with RNA in the transition state Chakrabarti S et al. Mol Cell 2011 pdb entry: 2xzo CH and Helicase domains of yeast Upf1 with RNA in the transition state Chakrabarti S et al. Mol Cell 2011 pdb entry: 2xzl Four KH domains of the C. elegans Bicaudal-C ortholog GLD-3 Nakel K et al. RNA. 2010 pdb entry: 3n89 Mtr4 in complex with RNA and ADP Weir JR et al. Proc Natl Acad Sci U S A. 2010 pdb entry: 2xgj EJC in complex with the C-terminus of Upf3b Buchwald G et al. Proc Natl Acad Sci U S A. 2010 pdb entry: 2xb2 Importin 13 in complex with Mago-Y14 Bono F et al. Mol Cell. 2010 pdb entry: 2x1g Importin 13 in complex with Ran-GTP Bono F et al. Mol Cell. 2010 pdb entry: 2x19 Yeast exosome components Rrp41 and Rrp45 in complex with the Rrp44 nuclease Bonneau F, Basquin J et al. Cell. 2009 pdb entry: 2wp8 tRNA export factor: nuclear state Cook AG et al. Nature. 2009 pdb entry: 3icq tRNA export factor: cytosolic state Cook AG et al. Nature. 2009 pdb entry: 3ibv Dbp5 in complex with RNA and AMPPNP von Moeller H et al. Nat Struct Mol Biol. 2009 pdb entry: 3fht N-terminal domain of Dbp5 in complex with Nup214 von Moeller H et al. Nat Struct Mol Biol. 2009 pdb entry: 3fhc C-terminal region of Drosophila Ge-1 Jinek M et al. RNA. 2008 pdb entry: 2vxg Active Subunit of the Yeast Exosome Core: Rrp44 Lorentzen E et al. Mol Cell. 2008 pdb entry: 2vnu Survivin-Borealin-INCENP Core Complex Jeyaprakash AA et al. Cell. 2007 pdb entry: 2qfa 9-Subunit Archaeal Exosome Lorentzen E et al. EMBO Rep. 2007 pdb entries: 2je6 2jea 2jeb Yeast Exosome Component Rrp40 Oddone A et al. EMBO Rep. 2007 pdb entry: 2ja9 Exon Junction Complex Bono F et al. Cell. 2006 pdb entries: 2j0s 2j0q EIF4AIII-Barentsz Complex Bono F et al. Cell. 2006 pdb entry: 2j0u Catalytic Domain of Mouse Manic Fringe Jinek M et al. Nat Struct Mol Biol. 2006 pdb entries: 2j0a 2j0b PIN Domains of SMG5 and SMG6 Glavan F et al. EMBO J. 2006 pdb entries: 2hww (SMG6) 2hwx 2hwy (SMG5) RNAse PH Core of the Archaeal Exosome Lorentzen E et al. Nat Struct Mol Biol. 2005 Lorentzen E et al. Mol Cell. 2005 pdb entries: 2br2 2c37 2c38 2c39 Exportin Cse1 in its Cargo-free State Cook A et al. Mol Cell. 2005 pdb entry: 1z3h N-terminal Domain of Human SMG7 Fukuhara N et al. Mol Cell. 2005 pdb entry: 1ya0 Superhelical TPR-repeat Domain of O-Linked GlcNAc Transferase Jinek M et al. Nat Struct Mol Biol. 2004 pdb entry: 1w3b PYM bound to the Mago-Y14 Core of the Exon Junction Complex Bono F et al. EMBO Rep. 2004 pdb entry: 1rk8 Aurora-A bound to TPX2 Bayliss R et al. Mol Cell. 2003Bayliss R et al. Cell Cycle. 2004 pdb entries: 1ol5 1ol6 1ol7 mRNA Export Factor MEX67-MTR2 Complex Fribourg S et al. EMBO Rep. 2003 pdb entry: 1of5 NTF2-like Domain of TAP/p15 mRNA Export Factor Fribourg S et al. Mol Cell. 2001 pdb entries: 1jkg 1jn5 Mago-Y14 Complex Fribourg S et al. Nat Struct Biol. 2003 pdb entry: 1hl6 RNA Binding Domain of the mRNA Export Factor TAP Liker E et al. EMBO J. 2000 pdb entries: 1ft8 1fo1 Karyopherin Alpha from Saccharomyces Cerevisiae bound to NLS Conti E et al. Cell. 1998Conti E et al. Structure. 2000 pdb entries: 1bk5 1bk6 1ee4 1ee5
