2WWA Ribosome date Oct 22, 2009
title Cryo-Em Structure Of Idle Yeast Ssh1 Complex Bound To The Ye 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: Sec Sixty-One Protein Homolog
Chain: A
Synonym: Ssh1p, Ssh1 Complex Subunit Ssh1, Ssh1 Complex Sub Alpha;
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932

Molecule: Protein Transport Protein Sss1
Chain: B
Synonym: Sss1p, Sec61 Complex Subunit Sss1, Sec61 Complex S Gamma, Ssh1 Complex Subunit Sss1, Ssh1 Complex Subunit Gamm

Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932

Molecule: Protein Transport Protein Seb2
Chain: C
Fragment: Residues 1-87
Synonym: Sbh2p, Ssh1 Complex Subunit Seb2, Ssh1 Complex Sub

Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932

Molecule: 25s Rrna
Chain: D
Other_details: H5_h6_h7 Fragment

Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932

Molecule: 25s Rrna
Chain: E
Other_details: H24 Fragment

Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932

Molecule: 25s Rrna
Chain: F
Other_details: H50 Fragment

Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932

Molecule: 25s Rrna
Chain: G
Other_details: H59 Fragment

Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932

Molecule: 60s Ribosomal Protein L4-B
Chain: H
Synonym: 60s Ribosomal Protein L4, L2, Yl2, Rp2

Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932

Molecule: 60s Ribosomal Protein L17-A
Chain: I
Synonym: 60s Ribosomal Protein L17, L20a, Yl17

Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932

Molecule: 60s Ribosomal Protein L19
Chain: J
Synonym: L23, Yl14, Rp15l, Rp33

Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932

Molecule: 60s Ribosomal Protein L25
Chain: K
Synonym: Yl25, Rp16l, Yp42'

Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932

Molecule: 60s Ribosomal Protein L26-A
Chain: L
Synonym: 60s Ribosomal Protein L26, L33, Yl33

Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932

Molecule: 60s Ribosomal Protein L31-A
Chain: M
Synonym: 60s Ribosomal Protein L31, L34, Yl28

Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932

Molecule: 60s Ribosomal Protein L35
Chain: N

Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932

Molecule: 60s Ribosomal Protein L39
Chain: O
Synonym: L46, Yl40

Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932
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 8.90 Å
Gene
Ontology
ChainFunctionProcessComponent
A


B


C


H

  • cytosolic large ribosomal su...
  • I


    J

  • cytosolic large ribosomal su...
  • 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] (256 Kb) [Save to disk]
  • Biological Unit Coordinates (2wwa.pdb1.gz) 247 Kb
  • CSU: Contacts of Structural Units for 2WWA
  • Retrieve 2WWA in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2WWA from S2C, [Save to disk]
  • View 2WWA 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 2WWA
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 2WWA, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2wwa_D] [2wwa_L] [2wwa] [2wwa_C] [2wwa_A] [2wwa_I] [2wwa_O] [2wwa_J] [2wwa_B] [2wwa_F] [2wwa_G] [2wwa_K] [2wwa_M] [2wwa_H] [2wwa_N] [2wwa_E]
  • SWISS-PROT database: [P05740] [P05735] [P04456] [P05743] [P0C2H8] [P39741] [P04650] [P49626] [P35179] [P52871] [P38353]
  • Belongs to the general secretory pathway (sec) family according to TCDB.
  • Domain organization of [RL17A_YEAST] [RL19_YEAST] [RL25_YEAST] [RL26A_YEAST] [RL31A_YEAST] [RL35_YEAST] [RL39_YEAST] [RL4B_YEAST] [SC61G_YEAST] [SC6B2_YEAST] [SSH1_YEAST] by SWISSPFAM
  • Domains found in 2WWA: [KOW] [Ribosomal_L19e] [Ribosomal_L31e ] by SMART
  • Other resources with information on 2WWA
  • Community annotation for 2WWA at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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