2WW9

Cryo-EM structure of the active yeast Ssh1 complex bound to the yeast 80S ribosome


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 8.6 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report


This is version 2.0 of the entry. See complete history

Literature

Structure of Monomeric Yeast and Mammalian Sec61 Complexes Interacting with the Translating Ribosome.

Becker, T.Bhushan, S.Jarasch, A.Armache, J.P.Funes, S.Jossinet, F.Gumbart, J.Mielke, T.Berninghausen, O.Schulten, K.Westhof, E.Gilmore, R.Mandon, E.Beckmann, R.

(2009) Science 326: 1369

  • DOI: 10.1126/science.1178535
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The trimeric Sec61/SecY complex is a protein-conducting channel (PCC) for secretory and membrane proteins. Although Sec complexes can form oligomers, it has been suggested that a single copy may serve as an active PCC. We determined subnanometer-reso ...

    The trimeric Sec61/SecY complex is a protein-conducting channel (PCC) for secretory and membrane proteins. Although Sec complexes can form oligomers, it has been suggested that a single copy may serve as an active PCC. We determined subnanometer-resolution cryo-electron microscopy structures of eukaryotic ribosome-Sec61 complexes. In combination with biochemical data, we found that in both idle and active states, the Sec complex is not oligomeric and interacts mainly via two cytoplasmic loops with the universal ribosomal adaptor site. In the active state, the ribosomal tunnel and a central pore of the monomeric PCC were occupied by the nascent chain, contacting loop 6 of the Sec complex. This provides a structural basis for the activity of a solitary Sec complex in cotranslational protein translocation.


    Organizational Affiliation

    Gene Center Munich and Center for Integrated Protein Science, Department of Chemistry and Biochemistry, Ludwig-Maximilians-Universit√§t M√ľnchen, Feodor-Lynen-Strasse 25, 81377 Munich, Germany.




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
SEC SIXTY-ONE PROTEIN HOMOLOG
A
490Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: SSH1
Find proteins for P38353 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to Gene View: SSH1
Go to UniProtKB:  P38353
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
PROTEIN TRANSPORT PROTEIN SSS1
B
80Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: SSS1
Find proteins for P35179 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P35179
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
PROTEIN TRANSPORT PROTEIN SEB2
C
87Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: SBH2 (SEB2)
Find proteins for P52871 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P52871
Entity ID: 8
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L4-B
H
362Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL4B (RPL2B)
Find proteins for P49626 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P49626
Entity ID: 9
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L17-A
I
184Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL17A (RPL17, RPL20A)
Find proteins for P05740 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P05740
Entity ID: 10
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L19
J
189Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL19A (RPL23A, YL14A)
Find proteins for P0CX82 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P0CX82
Entity ID: 11
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L25
K
142Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL25
Find proteins for P04456 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P04456
Entity ID: 12
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L26-A
L
127Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL26A (RPL26, RPL33A)
Find proteins for P05743 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P05743
Entity ID: 13
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L31-A
M
113Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL31A (RPL34, RPL34A)
Find proteins for P0C2H8 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P0C2H8
Entity ID: 14
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L35
N
120Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL35A (SOS1)
Find proteins for P0CX84 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to Gene View: RPL35A
Go to UniProtKB:  P0CX84
Entity ID: 15
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L39
O
51Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL39 (RPL46, SPB2)
Find proteins for P04650 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to Gene View: RPL39
Go to UniProtKB:  P04650
Entity ID: 4
MoleculeChainsLengthOrganism
25S RRNAD63Saccharomyces cerevisiae
Entity ID: 5
MoleculeChainsLengthOrganism
25S RRNAE34Saccharomyces cerevisiae
Entity ID: 6
MoleculeChainsLengthOrganism
25S RRNAF25Saccharomyces cerevisiae
Entity ID: 7
MoleculeChainsLengthOrganism
25S RRNAG18Saccharomyces cerevisiae
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 8.6 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2009-12-08
    Type: Initial release
  • Version 1.1: 2011-07-20
    Type: Database references, Derived calculations, Other, Refinement description, Structure summary
  • Version 1.2: 2015-10-28
    Type: Other
  • Version 1.3: 2017-04-19
    Type: Other
  • Version 2.0: 2018-10-03
    Type: Atomic model, Data collection, Derived calculations