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X-ray Structures EM Structures

3D Repertoire X-ray Structures

Complexes:

NameRpb41-Rpb42Rpb41-Rpb42
SpeciesSulfolobus solfataricum
Complex ID500
Molecular descriptionRNase PH core of the archaeal exosome
Complex IDLorentzen, E., Walter, P., Fribourg, S., Evguenieva-Hackenberg, E., Klug, G., Conti, E. The Archaeal Exosome is a Hexameric Ring with Three Catalytic Subunits Nat.Struct.Mol.Biol. v12 pp.575 , 2005 (PubMed)
PDB entry2br2
Partner16A

NameRpb41-Rpb42-A5RNARpb41-Rpb42-A5RNA
SpeciesSulfolobus solfataricum
Complex ID500
Molecular descriptionRNase PH core of the archaeal exosome in complex with A5 RNA
Complex IDLorentzen, E., Conti, E. Structural Basis of 3' End RNA Recognition and Exoribonucleolytic Cleavage by an Exosome Rnase Ph Core. Mol.Cell.Biol. v20 pp.473, 2005 (PubMed)
PDB entry2c38
Partner16A

NameRpb41-Rpb42-Rpb4Rpb41-Rpb42-Rpb4
SpeciesSulfolobus solfataricum
Complex ID500
Molecular description9-subunit archaeal exosome
Complex IDLorentzen, E.,  Dziembowski, A.,  Lindner, D.,  Seraphin, B.,  Conti, E. RNA Channeling by the Archaeal Exosome EMBO Rep. May;8(5):470-6, 2007 (PubMed)
PDB entry2ja6
Partner3B, 16A, 18Old picture

NameRpb41-Rpb42-Rpb4-RNA>Rpb41-Rpb42-Rpb4-RNA
SpeciesSulfolobus solfataricum
Complex ID500
Molecular description9-subunit archaeal exosome in complex with RNA
Complex IDLorentzen, E.,  Dziembowski, A.,  Lindner, D.,  Seraphin, B.,  Conti, E. RNA Channeling by the Archaeal Exosome EMBO Rep. May;8(5):470-6, 2007 (PubMed)
PDB entry2jea
Partner3B, 16A, 18Old picture

NameRrp44/RNARrp44/RNA
SpeciesS. cerevisiae
Complex ID500
Molecular descriptionExosome complex exonuclease
Complex IDLorentzen, E., Basquin, J., Tomecki, R., Dziembowski, A. and Conti, E. (2008). Structure of the active subunit of the yeast exosome core, Rrp44: diverse modes of substrate recruitment in the RNase II nuclease family. Mol Cell 29, 717-728. (PubMed)
PDB entry2vnu
Partner2B

NameRrp44-Rrp41-Rrp45Rrp44-Rrp41-Rrp45
SpeciesS. cerevisiae
Complex ID500
Molecular descriptionExosome complex exonuclease
Complex IDBonneau F, Basquin J, Ebert J, Lorentzen E, Conti E.The yeast exosome functions as a macromolecular cage to channel RNA substrates for degradation.Cell. 2009 Oct 30;139(3):547-59. (PubMed)
PDB entry2wp8
Partner2B

NamePol II-RNA inhibitorPol II-RNA inhibitor
SpeciesS. cerevisiae
Complex ID145
Molecular descriptionComplete RNA Polymerase II-RNA inhibitor complex
Complex IDKettenberger, H.,  Eisenfuehr, A.,  Brueckner, F.,  Theis, M.,  Famulok, M.,  Cramer, P. Structure of an RNA polymerase II-RNA inhibitor complex elucidates transcription regulation by noncoding RNAs Nat.Struct.Mol.Biol. v13 pp.44-48, 2006 (PubMed)
PDB entry2b63
Partner4

NameMed18/20Med18/20
SpeciesS. cerevisiae
Complex ID139
Molecular descriptionMediator head submodule (heterodimer)
Complex IDLariviere, L., Geiger, S., Hoeppner, S.,  Rother, S.,  Strasser, K.,  Cramer, P. Structure and TBP binding of the Mediator head subcomplex Med8-Med18-Med20. Nat.Struct.Mol.Biol. v13 pp.895-901, 2006 (PubMed)
PDB entry2hzm
Partner4

NameMed8C/18/20Med8C/18/20
SpeciesS. cerevisiae
Complex ID139
Molecular descriptionMediator head submodule (heterotrimer)
Complex IDLariviere, L., Geiger, S., Hoeppner, S., Rother, S., Strasser, K.,  Cramer, P. Structure and TBP binding of the Mediator head subcomplex Med8-Med18-Med20. Nat.Struct.Mol.Biol. v13 pp.895-901, 2006 (PubMed)
PDB entry2hzs
Partner4

NameMed7N/31Med7N/31
SpeciesS. cerevisiae
Complex ID139
Molecular descriptionMediator submodule
Complex IDKoschubs T, Seizl M, Larivière L, Kurth F, Baumli S, Martin DE, Cramer P. (2009) Identification, structure, and functional requirement of the Mediator submodule Med7N/31. EMBO J. Jan 7;28(1):69-80. (PubMed)
PDB entry3fbi
Partner4

NameTau60-Tau91Tau60-Tau91
SpeciesS. cerevisiae
Complex ID001
Molecular descriptionSubcomplex of yeast transcription factor IIIC
Complex IDMylona, A.,  Fernandez-Tornero, C.,  Legrand, P.,  Haupt, M.,  Sentenac, A.,  Acker, J.,  Muller, C.W. Structure of the Tau60/Deltatau91 Subcomplex of Yeast Transcription Factor IIIC: Insights Into Preinitiation Complex Assembly Molecular Cell v24 pp.221, 2006 (PubMed)
PDB entry2j04
Partner16B

NameMetRS-Arc1pMetRS-Arc1p
SpeciesS. cerevisiae
Complex ID243
Molecular descriptionBinary subcomplex of yeast aminoacyl-tRNA synthase
Complex IDSimader, H.,  Hothorn, M.,  Kohler, C.,  Basquin, J.,  Simos, G.,  Suck, D. Structural basis of yeast aminoacyl-tRNA synthetase complex formation revealed by crystal structures of two binary sub-complexes. Nucleic Acids Res. v34 pp.3968-3979 , 2006 (PubMed)
PDB entry2hsn
Partner16A

NameGluRS-Arc1pGluRS-Arc1p
SpeciesS. cerevisiae
Complex ID243
Molecular descriptionBinary subcomplex of yeast aminoacyl-tRNA synthase
Complex IDSimader, H.,  Hothorn, M.,  Kohler, C.,  Basquin, J.,  Simos, G.,  Suck, D. Structural basis of yeast aminoacyl-tRNA synthetase complex formation revealed by crystal structures of two binary sub-complexes. Nucleic Acids Res. v34 pp.3968-3979 , 2006 (PubMed)
PDB entry2hrk
Partner16A

NameINCEP/Survivin/BorealinINCEP/Survivin/Borealin
SpeciesHomo sapiens
Complex IDNew
Molecular descriptionEngineered Chromosomal Passenger Complex
Complex IDJeyaprakash, A.A.,  Klein, U.R.,  Lindner, D.,  Ebert, J.,  Nigg, E.A.,  Conti, E. (2007) Structure of a Survivin-Borealin-INCENP Core Complex Reveals How Chromosomal Passengers Travel Together. Cell (PubMed)
PDB entry2qfa
Partner2B

NameMJ1130 (Kae1-Bud32)MJ1130 (Kae1-Bud32)
SpeciesMethanococcus jannaschii
Complex ID560
Molecular descriptionBinary sub-complex of the complex KEOPS/EKC
Complex IDHecker, A., Lopreiato, R.,  Graille, M.,  Collinet, B.,  Forterre, P.,  Libri, D.,  Van Tilbeurgh, H. Structure of the archaeal Kae1/Bud32 fusion protein MJ1130: a model for the eukaryotic EKC/KEOPS subcomplex. EMBO J. 2008 Aug 7.  (PubMed)
PDB entry2vwb
Partner3A

NameCdt1-GemininCdt1-Geminin
SpeciesH. sapiens
Complex IDnew
Molecular descriptionBinary complex involved in DNA replication licensing
Complex IDDe Marco V, Gillespie PJ, Li A, Karantzelis N, Christodoulou E, Klompmaker R, van Gerwen S, Fish A, Petoukhov MV, Iliou MS, Lygerou Z, Medema RH, Blow JJ, Svergun DI, Taraviras S, Perrakis A. Quaternary structure of the human Cdt1-Geminin complex regulates DNA replication licensing. PNAS, 2009 (PubMed)
PDB entry2wvr
Partner5

NameXpo-7/tRNA/RanXpo-7/tRNA/Ran
SpeciesS. pombe, S. cerevisiae, synthetic construct
Complex IDnew
Molecular descriptionKaryopherin nuclear state
Complex IDCook AG, Fukuhara N, Jinek M, Conti E. Structures of the tRNA export factor in the nuclear and cytosolic states. Nature. 2009 Sep 3;461(7260):60-5. (PubMed)
PDB entry3icq
Partner2BXpo-t-tRNA-Ran

NameNdc80Ndc80
SpeciesHomo sapiens
Complex ID254
Molecular descriptionBonsai version of the human Ndc80 complex
Complex IDCiferri, C.,   Pasqualato, S.,   Screpanti, E.,   Varetti, G.,   Santaguida, S.,   Dos Reis, G.,   Maiolica, A.,   Polka, J.,   De Luca, J.G.,   De Wulf, P.,   Salek, M., Rappsilber, J.,   Moores, C.A.,   Salmon, E.D.,   Musacchio, A. Implications for kinetochore-microtubule attachment from the structure of anengineered Ndc80 complex.(2008) Cell(Cambridge,Mass.) 133: 427-439 (PubMed)
PDB entry2ve7
Partner6

NameDbp5/RNA/AMPPNPDbp5/RNA/AMPPNP
SpeciesHomo sapiens
Complex ID1504
Molecular descriptionmRNA transport protein Dbp5 in complex with RNA and AMPPNP
Complex IDvon Moeller H, Basquin C, Conti E. The mRNA export protein DBP5 binds RNA and the cytoplasmic nucleoporin NUP214 in a mutually exclusive manner. Nat Struct Mol Biol. 2009 Mar;16(3):247-54.  (PubMed)
PDB entry3fht
Partner2B

NameDbp5/NUP214Dbp5/NUP214
SpeciesHomo sapiens
Complex ID1504
Molecular descriptionmRNA transport protein Dbp5 in complex with Nup214
Complex IDvon Moeller H, Basquin C, Conti E. The mRNA export protein DBP5 binds RNA and the cytoplasmic nucleoporin NUP214 in a mutually exclusive manner. Nat Struct Mol Biol. 2009 Mar;16(3):247-54.  (PubMed)
PDB entry3fhc
Partner2B

NameImportin13/MagoY14Importin13/MagoY14
SpeciesDrosophila melanogaster
Complex IDFunctionProtein transport
Molecular description
Complex IDBono F, Cook AG, Grünwald M, Ebert J, Conti E. Nuclear import mechanism of the EJC component Mago-Y14 revealed by structural studies of importin 13. Mol Cell. 2010 Jan 29;37(2):211-22. (PubMed)
PDB entry2x1g
Partner2B

NamePex14/Pex19Pex14/Pex19
SpeciesHomo sapiens
Complex IDFunctionProtein transport
Molecular description
Complex IDNeufeld C, Filipp FV, Simon B, Neuhaus A, Schüller N, David C, Kooshapur H, Madl T, Erdmann R, Schliebs W, Wilmanns M, Sattler M. Structural basis for competitive interactions of Pex14 with the import receptors Pex5 and Pex19. EMBO J. 2009 Mar 18;28(6):745-54. (PubMed)
PDB entry2w85
Partner16C

NamePex14/Pex5Pex14/Pex5
SpeciesHomo sapiens
Complex ID
Molecular descriptionPex14 in complex with the import receptor Pex5
Complex IDNeufeld C, Filipp FV, Simon B, Neuhaus A, Schüller N, David C, Kooshapur H, Madl T, Erdmann R, Schliebs W, Wilmanns M, Sattler M. Structural basis for competitive interactions of Pex14 with the import receptors Pex5 and Pex19. EMBO J. 2009 Mar 18;28(6):745-54. (PubMed)
PDB entry2w84
Partner16C

Single Proteins:

NameRrp40Rrp40
Species
Complex ID500
Molecular descriptionExonuclease belonging to the Exosome complex
Complex IDOddone, A.,  Lorentzen, E.,  Basquin, J.,  Gasch, A.,  Rybin, V.,  Conti, E.,  Sattler, M. Structural and Biochemical Characterization of the Yeast Exosome Component Rrp40 EMBO Reports v8 pp.63 , 2007 (PubMed)
PDB entry2ja9
Partner16A

NameArc1pArc1p
Species
Complex ID243
Molecular descriptionN-terminal domain of GU4 nucleic-binding protein (export factor)
Complex IDSimader, H.,  Hothorn, M.,  Suck, D. Structures of the interacting domains from yeast glutamyl-tRNA synthetase and tRNA-aminoacylation and nuclear-export cofactor Arc1p reveal a novel function for an old fold. ACTA D v62 pp.1510-1519 , 2006 (PubMed)
PDB entry2hqt
Partner16A

NameYnr046w/Tmr12Ynr046w/Tmr12
Species
Complex ID065
Molecular descriptionZinc finger protein from the eRF1 methyltransferase complex
Complex IDHeurgue-Hamard, V.,  Graille, M.,  Scrima, N.,  Ulryck, N.,  Champ, S.,  Van Tilbeurgh, H.,  Buckingham, R.H. The Zinc Finger Protein Ynr046W is Plurifunctional and a Component of the Erf1 Methyltransferase in Yeast. J.Biol.Chem. v281 pp.36140 , 2006 (PubMed)
PDB entry2j6a
Partner3A

NameXpo-tXpo-t
Species
Complex IDnew
Molecular descriptionExportin-T, Karyopherin cytosolic state
Complex IDCook AG, Fukuhara N, Jinek M, Conti E. Structures of the tRNA export factor in the nuclear and cytosolic states. Nature. 2009 Sep 3;461(7260):60-5. (PubMed)
PDB entry3ibv
Partner2BB - Complexes