2WWB Ribosome date Oct 22, 2009
title Cryo-Em Structure Of The Mammalian Sec61 Complex Bound To Th Translating Wheat Germ 80s Ribosome
authors T.Becker, E.Mandon, S.Bhushan, A.Jarasch, J.P.Armache, S.Funes, F. J.Gumbart, T.Mielke, O.Berninghausen, K.Schulten, E.Westhof, R.G R.Beckmann
compound source
Molecule: Protein Transport Protein Sec61 Subunit Alpha Iso
Chain: A
Synonym: Sec61alpha, Sec61 Alpha-1
 Organism_scientific: Canis Lupus Familiaris
Organism_common: Dog
Organism_taxid: 9615
Organ: Pancreas

Molecule: Protein Transport Protein Sec61 Subunit Gamma
Chain: B
Synonym: Sec61gamma
Organism_scientific: Canis Lupus Familiaris
Organism_common: Dog
Organism_taxid: 9615
Organ: Pancreas

Molecule: Protein Transport Protein Sec61 Subunit Beta
Chain: C
Synonym: Sec61beta
Organism_scientific: Canis Lupus Familiaris
Organism_common: Dog
Organism_taxid: 9615
Organ: Pancreas

Molecule: 5.8s Rrna
Chain: D
Other_details: H5_h6_h7 Fragment
Organism_scientific: Triticum Aestivum
Organism_common: Bread Wheat
Organism_taxid: 4565
Other_details: Coordinate Source Originally From Saccharomy Cerevisiae;

Molecule: 25s Rrna
Chain: E
Other_details: H24 Fragment
Organism_scientific: Triticum Aestivum
Organism_common: Bread Wheat
Organism_taxid: 4565
Other_details: Coordinate Source Originally From Saccharomy Cerevisiae;

Molecule: 25s Rrna
Chain: F
Other_details: H50 Fragment
Organism_scientific: Triticum Aestivum
Organism_common: Bread Wheat
Organism_taxid: 4565
Other_details: Coordinate Source Originally From Saccharomy Cerevisiae;

Molecule: 25s Rrna
Chain: G
Other_details: H59 Fragment
Organism_scientific: Triticum Aestivum
Organism_common: Bread Wheat
Organism_taxid: 4565
Other_details: Coordinate Source Originally From Oryza Sati

Molecule: 60s Ribosomal Protein L4-B
Chain: H
Synonym: 60s Ribosomal Protein L4, L2, Yl2, Rp2
Organism_scientific: Triticum Aestivum
Organism_common: Bread Wheat
Organism_taxid: 4565
Other_details: Coordinate Source Originally From Saccharomy Cerevisiae;

Molecule: 60s Ribosomal Protein L17-A
Chain: I
Synonym: 60s Ribosomal Protein L17, L20a, Yl17
Organism_scientific: Triticum Aestivum
Organism_common: Bread Wheat
Organism_taxid: 4565
Other_details: Coordinate Source Originally From Saccharomy Cerevisiae;

Molecule: 60s Ribosomal Protein L19
Chain: J
Synonym: L23, Yl14, Rp15l, Rp33
Organism_scientific: Triticum Aestivum
Organism_common: Bread Wheat
Organism_taxid: 4565
Other_details: Coordinate Source Originally From Saccharomy Cerevisiae;

Molecule: 60s Ribosomal Protein L25
Chain: K
Synonym: Yl25, Rp16l, Yp42'
Organism_scientific: Triticum Aestivum
Organism_common: Bread Wheat
Organism_taxid: 4565
Other_details: Coordinate Source Originally From Saccharomy Cerevisiae;

Molecule: 60s Ribosomal Protein L26-A
Chain: L
Synonym: 60s Ribosomal Protein L26, L33, Yl33
Organism_scientific: Triticum Aestivum
Organism_common: Bread Wheat
Organism_taxid: 4565
Other_details: Coordinate Source Originally From Saccharomy Cerevisiae;

Molecule: 60s Ribosomal Protein L31-A
Chain: M
Synonym: 60s Ribosomal Protein L31, L34, Yl28
Organism_scientific: Triticum Aestivum
Organism_common: Bread Wheat
Organism_taxid: 4565
Other_details: Coordinate Source Originally From Saccharomy Cerevisiae;

Molecule: 60s Ribosomal Protein L35
Chain: N
Organism_scientific: Triticum Aestivum
Organism_common: Bread Wheat
Organism_taxid: 4565
Other_details: Coordinate Source Originally From Saccharomy Cerevisiae;

Molecule: 60s Ribosomal Protein L39
Chain: O
Synonym: L46, Yl40
Organism_scientific: Triticum Aestivum
Organism_common: Bread Wheat
Organism_taxid: 4565
Other_details: Coordinate Source Originally From Saccharomy Cerevisiae
symmetry Space Group: P 1
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
1.000 1.000 1.000 90.00 90.00 90.00
method Electron Microscopyresolution 6.48 Å
Gene
Ontology
ChainFunctionProcessComponent
A


B


C


H

  • cytosolic large ribosomal su...
    • I


    J


    K

  • cytosolic large ribosomal su...
    • L


    M


    N

  • cytosolic large ribosomal su...
    • O

  • cytosolic large ribosomal su...
    • Primary referenceStructure of monomeric yeast and Mammalian sec61 complexes interacting with the translating ribosome., Becker T, Bhushan S, Jarasch A, Armache JP, Funes S, Jossinet F, Gumbart J, Mielke T, Berninghausen O, Schulten K, Westhof E, Gilmore R, Mandon EC, Beckmann R, Science. 2009 Dec 4;326(5958):1369-73. Epub 2009 Oct 29. PMID:19933108
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (258 Kb) [Save to disk]
  • Biological Unit Coordinates (2wwb.pdb1.gz) 248 Kb
  • CSU: Contacts of Structural Units for 2WWB
  • Retrieve 2WWB in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2WWB from S2C, [Save to disk]
    • View 2WWB in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
    • Visual 3D analysis of 2WWB
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 2WWB, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2wwb_E] [2wwb_L] [2wwb_N] [2wwb_F] [2wwb_C] [2wwb_G] [2wwb_H] [2wwb_J] [2wwb_B] [2wwb_D] [2wwb] [2wwb_M] [2wwb_I] [2wwb_K] [2wwb_A] [2wwb_O]
  • SWISS-PROT database: [P38377] [P60467] [P60058]
  • Domain organization of [S61A1_CANFA] [SC61B_CANFA] [SC61G_CANFA] by SWISSPFAM
  • Domains found in 2WWB: [KOW] [Ribosomal_L19e] [Ribosomal_L31e ] by SMART
    • Other resources with information on 2WWB
  • Community annotation for 2WWB at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
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  • Images from IMB Jena Image Library of Biological Macromolecules.

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