4BTS

THE CRYSTAL STRUCTURE OF THE EUKARYOTIC 40S RIBOSOMAL SUBUNIT IN COMPLEX WITH EIF1 AND EIF1A


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.703 Å
  • R-Value Free: 0.229 
  • R-Value Work: 0.202 

wwPDB Validation 3D Report Full Report


This is version 1.4 of the entry. See complete history

Literature

The crystal structure of the eukaryotic 40S ribosomal subunit in complex with eIF1 and eIF1A.

Weisser, M.Voigts-Hoffmann, F.Rabl, J.Leibundgut, M.Ban, N.

(2013) Nat. Struct. Mol. Biol. 20: 1015-1017

  • DOI: 10.1038/nsmb.2622
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Eukaryotic translation initiation factors (eIFs) 1A and 1 are central players in the complex process of start-codon recognition. To improve mechanistic understanding of this process, we determined the crystal structure of the 40S ribosomal subunit in ...

    Eukaryotic translation initiation factors (eIFs) 1A and 1 are central players in the complex process of start-codon recognition. To improve mechanistic understanding of this process, we determined the crystal structure of the 40S ribosomal subunit in complex with eIF1A and eIF1 from Tetrahymena thermophila at a resolution of 3.7 Å. It reveals the positions of the two factors on the 40S and the conformational changes that accompany their binding.


    Organizational Affiliation

    Institute of Molecular Biology and Biophysics, Swiss Federal Institute of Technology (ETH Zürich), Zürich, Switzerland.




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
TRANSLATION INITIATION FACTOR EIF-1A FAMILY PROTEIN
A0, B0, C0, D0
211Tetrahymena thermophila (strain SB210)Mutation(s): 0 
Find proteins for I7MK25 (Tetrahymena thermophila (strain SB210))
Go to UniProtKB:  I7MK25
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN RPS28E
A1, B1, C1, D1
68Tetrahymena thermophilaMutation(s): 0 
Find proteins for E6PBU6 (Tetrahymena thermophila)
Go to UniProtKB:  E6PBU6
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN S8
A2, B2, C2, D2
208Tetrahymena thermophilaMutation(s): 0 
Find proteins for E6PBS6 (Tetrahymena thermophila)
Go to UniProtKB:  E6PBS6
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN RPS7E
A3, B3, C3, D3
197Tetrahymena thermophilaMutation(s): 0 
Find proteins for E6PBS5 (Tetrahymena thermophila)
Go to UniProtKB:  E6PBS5
Entity ID: 5
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN S3A
A4, B4, C4, D4
265Tetrahymena thermophilaMutation(s): 0 
Find proteins for E6PBR8 (Tetrahymena thermophila)
Go to UniProtKB:  E6PBR8
Entity ID: 6
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN RPS26E
A5, B5, C5, D5
119Tetrahymena thermophilaMutation(s): 0 
Find proteins for E6PBU4 (Tetrahymena thermophila)
Go to UniProtKB:  E6PBU4
Entity ID: 7
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN S27
A6, B6, C6, D6
81Tetrahymena thermophilaMutation(s): 0 
Find proteins for E6PBU5 (Tetrahymena thermophila)
Go to UniProtKB:  E6PBU5
Entity ID: 8
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN RPS10E
A7, B7, C7, D7
162Tetrahymena thermophilaMutation(s): 0 
Find proteins for E6PBS8 (Tetrahymena thermophila)
Go to UniProtKB:  E6PBS8
Entity ID: 9
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN RPS25E
A8, B8, C8, D8
143Tetrahymena thermophilaMutation(s): 0 
Find proteins for E6PBU3 (Tetrahymena thermophila)
Go to UniProtKB:  E6PBU3
Entity ID: 10
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN RPS31E
A9, B9, C9, D9
189Tetrahymena thermophilaMutation(s): 0 
Find proteins for E6PBU9 (Tetrahymena thermophila)
Go to UniProtKB:  E6PBU9
Entity ID: 12
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN SA
AB, BB, CB, DB
241Tetrahymena thermophilaMutation(s): 0 
Find proteins for E6PBR9 (Tetrahymena thermophila)
Go to UniProtKB:  E6PBR9
Entity ID: 13
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN RPS3E
AC, BC, CC, DC
243Tetrahymena thermophilaMutation(s): 0 
Find proteins for E6PBS1 (Tetrahymena thermophila)
Go to UniProtKB:  E6PBS1
Entity ID: 14
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN RPS9E
AD, BD, CD, DD
181Tetrahymena thermophilaMutation(s): 0 
Find proteins for E6PBS7 (Tetrahymena thermophila)
Go to UniProtKB:  E6PBS7
Entity ID: 15
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN RPS2E
AE, BE, CE, DE
296Tetrahymena thermophilaMutation(s): 0 
Find proteins for E6PBS0 (Tetrahymena thermophila)
Go to UniProtKB:  E6PBS0
Entity ID: 16
MoleculeChainsSequence LengthOrganismDetails
EIF1
AF, BF, CF, DF
101Tetrahymena thermophilaMutation(s): 0 
Find proteins for E6PBV1 (Tetrahymena thermophila)
Go to UniProtKB:  E6PBV1
Entity ID: 17
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN RPS5E
AG, BG, CG, DG
200Tetrahymena thermophilaMutation(s): 0 
Find proteins for E6PBS3 (Tetrahymena thermophila)
Go to UniProtKB:  E6PBS3
Entity ID: 18
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN RPS22E
AH, BH, CH, DH
130Tetrahymena thermophilaMutation(s): 0 
Find proteins for E6PBU0 (Tetrahymena thermophila)
Go to UniProtKB:  E6PBU0
Entity ID: 19
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN RPS16E
AI, BI, CI, DI
145Tetrahymena thermophilaMutation(s): 0 
Find proteins for E6PBT4 (Tetrahymena thermophila)
Go to UniProtKB:  E6PBT4
Entity ID: 20
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN RPS20E
AJ, BJ, CJ, DJ
120Tetrahymena thermophilaMutation(s): 0 
Find proteins for E6PBT8 (Tetrahymena thermophila)
Go to UniProtKB:  E6PBT8
Entity ID: 21
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN RPS14E
AK, BK, CK, DK
151Tetrahymena thermophilaMutation(s): 0 
Find proteins for E6PBT2 (Tetrahymena thermophila)
Go to UniProtKB:  E6PBT2
Entity ID: 22
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN S12
AL, BL, CL, DL
142Tetrahymena thermophilaMutation(s): 0 
Find proteins for P06147 (Tetrahymena thermophila)
Go to UniProtKB:  P06147
Entity ID: 23
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN RPS18E
AM, BM, CM, DM
155Tetrahymena thermophilaMutation(s): 0 
Find proteins for E6PBT6 (Tetrahymena thermophila)
Go to UniProtKB:  E6PBT6
Entity ID: 24
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN RPS29E
AN, BN, CN, DN
55Tetrahymena thermophilaMutation(s): 0 
Find proteins for E6PBU7 (Tetrahymena thermophila)
Go to UniProtKB:  E6PBU7
Entity ID: 25
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN RPS13E
AO, BO, CO, DO
153Tetrahymena thermophilaMutation(s): 0 
Find proteins for E6PBT1 (Tetrahymena thermophila)
Go to UniProtKB:  E6PBT1
Entity ID: 26
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN S24
AP, BP, CP, DP
149Tetrahymena thermophilaMutation(s): 0 
Find proteins for E6PBU2 (Tetrahymena thermophila)
Go to UniProtKB:  E6PBU2
Entity ID: 27
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN RPS11E
AQ, BQ, CQ, DQ
157Tetrahymena thermophilaMutation(s): 0 
Find proteins for E6PBS9 (Tetrahymena thermophila)
Go to UniProtKB:  E6PBS9
Entity ID: 28
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN RACK1
AR, BR, CR, DR
343Tetrahymena thermophilaMutation(s): 0 
Find proteins for E6PBV0 (Tetrahymena thermophila)
Go to UniProtKB:  E6PBV0
Entity ID: 29
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN RPS15E
AS, BS, CS, DS
144Tetrahymena thermophilaMutation(s): 0 
Find proteins for E6PBT3 (Tetrahymena thermophila)
Go to UniProtKB:  E6PBT3
Entity ID: 30
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN RPS19E
AT, BT, CT, DT
155Tetrahymena thermophilaMutation(s): 0 
Find proteins for E6PBT7 (Tetrahymena thermophila)
Go to UniProtKB:  E6PBT7
Entity ID: 31
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN RPS12E
AU, BU, CU, DU
126Tetrahymena thermophilaMutation(s): 0 
Find proteins for E6PBT0 (Tetrahymena thermophila)
Go to UniProtKB:  E6PBT0
Entity ID: 32
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN RPS17E
AV, BV, CV, DV
130Tetrahymena thermophilaMutation(s): 0 
Find proteins for E6PBT5 (Tetrahymena thermophila)
Go to UniProtKB:  E6PBT5
Entity ID: 33
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN RPS4E
AW, BW, CW, DW
259Tetrahymena thermophilaMutation(s): 0 
Find proteins for E6PBS2 (Tetrahymena thermophila)
Go to UniProtKB:  E6PBS2
Entity ID: 34
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN RPS30E
AX, BX, CX, DX
80Tetrahymena thermophilaMutation(s): 0 
Find proteins for E6PBU8 (Tetrahymena thermophila)
Go to UniProtKB:  E6PBU8
Entity ID: 35
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN S6
AY, BY, CY, DY
293Tetrahymena thermophilaMutation(s): 0 
Find proteins for E6PBS4 (Tetrahymena thermophila)
Go to UniProtKB:  E6PBS4
Entity ID: 36
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN RPS21E
AZ, BZ, CZ, DZ
97Tetrahymena thermophilaMutation(s): 0 
Find proteins for E6PBT9 (Tetrahymena thermophila)
Go to UniProtKB:  E6PBT9
Entity ID: 11
MoleculeChainsLengthOrganism
18S ribosomal RNAAA,BA,CA,DA1753Tetrahymena thermophila
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download SDF File 
Download CCD File 
A5, A6, A9, AN, B5, B6, B9, BN, C5, C6, C9, CN, D5, D6, D9, DN
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
MG
Query on MG

Download SDF File 
Download CCD File 
AA, BA, CA, DA
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.703 Å
  • R-Value Free: 0.229 
  • R-Value Work: 0.202 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 209.990α = 90.00
b = 471.550β = 91.02
c = 298.540γ = 90.00
Software Package:
Software NamePurpose
XDSdata reduction
PHENIXrefinement
PHASERphasing
XSCALEdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2013-07-17
    Type: Initial release
  • Version 1.1: 2013-07-24
    Type: Database references
  • Version 1.2: 2014-06-25
    Type: Database references
  • Version 1.3: 2014-12-10
    Type: Other
  • Version 1.4: 2018-03-07
    Type: Database references, Source and taxonomy, Structure summary