› 4v5m

Electron Microscopy
7.8Å resolution

tRNA tranlocation on the 70S ribosome: the pre-translocational translocation intermediate TI(PRE)

Released:
DOI: 10.2210/pdb4v5m/pdb
PDB entry 4v5m coloured by chain, front view.
PDB entry 4v5m coloured by chain, side view.
PDB entry 4v5m coloured by chain, top view.
Source organisms:
Primary publication:
Head swivel on the ribosome facilitates translocation by means of intra-subunit tRNA hybrid sites.
Ratje AH, Loerke J, Mikolajka A, Brünner M, Hildebrand PW, Starosta AL, Dönhöfer A, Connell SR, Fucini P, Mielke T, Whitford PC, Onuchic JN, Yu Y, Sanbonmatsu KY, Hartmann RK, Penczek PA, Wilson DN, Spahn CM
OpenAccess logo Nature 468 713-6 (2010)
PMID: 21124459
Related structures: EMD-1798

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero 57-mer (preferred)
PDBe Complex ID:
PDB-CPX-141613 (preferred)
Entry contents:
52 distinct polypeptide molecules
5 distinct RNA molecules
Macromolecules (57 distinct):
Small ribosomal subunit protein uS2 Chain: AB
Molecule details ›
Chain: AB
Length: 256 amino acids
Theoretical weight: 29.32 KDa
Source organism: Thermus thermophilus HB8
Small ribosomal subunit protein uS3 Chain: AC
Molecule details ›
Chain: AC
Length: 239 amino acids
Theoretical weight: 26.75 KDa
Source organism: Thermus thermophilus HB8
Small ribosomal subunit protein uS4 Chain: AD
Small ribosomal subunit protein uS5 Chain: AE
Small ribosomal subunit protein bS6 Chain: AF
Small ribosomal subunit protein uS7 Chain: AG
30S RIBOSOMAL PROTEIN S8 Chain: AH
Small ribosomal subunit protein uS9 Chain: AI
Small ribosomal subunit protein uS10 Chain: AJ
Small ribosomal subunit protein uS11 Chain: AK
Small ribosomal subunit protein uS12 Chain: AL
Small ribosomal subunit protein uS13 Chain: AM
30S RIBOSOMAL PROTEIN S14 TYPE Z Chain: AN
Small ribosomal subunit protein uS15 Chain: AO
Small ribosomal subunit protein bS16 Chain: AP
30S RIBOSOMAL PROTEIN S17 Chain: AQ
Small ribosomal subunit protein bS18 Chain: AR
Small ribosomal subunit protein uS19 Chain: AS
Small ribosomal subunit protein bS20 Chain: AT
Small ribosomal subunit protein bTHX Chain: AU
Elongation factor G Chain: AY
Large ribosomal subunit protein bL27 Chain: B0
Large ribosomal subunit protein bL28 Chain: B1
Large ribosomal subunit protein uL29 Chain: B2
Large ribosomal subunit protein uL30 Chain: B3
Large ribosomal subunit protein bL31 Chain: B4
Large ribosomal subunit protein bL32 Chain: B5
Large ribosomal subunit protein bL33 Chain: B6
Large ribosomal subunit protein bL34 Chain: B7
Large ribosomal subunit protein bL35 Chain: B8
Large ribosomal subunit protein bL36 Chain: B9
Large ribosomal subunit protein uL1 Chain: BC
Large ribosomal subunit protein uL2 Chain: BD
Large ribosomal subunit protein uL3 Chain: BE
Large ribosomal subunit protein uL4 Chain: BF
Large ribosomal subunit protein uL5 Chain: BG
50S RIBOSOMAL PROTEIN L6 Chain: BH
Large ribosomal subunit protein uL11 Chain: BK
Large ribosomal subunit protein bL12 Chain: BL
Large ribosomal subunit protein uL13 Chain: BN
Large ribosomal subunit protein uL14 Chain: BO
Large ribosomal subunit protein uL15 Chain: BP
Large ribosomal subunit protein uL16 Chain: BQ
Large ribosomal subunit protein bL17 Chain: BR
Large ribosomal subunit protein uL18 Chain: BS
Large ribosomal subunit protein bL19 Chain: BT
Large ribosomal subunit protein bL20 Chain: BU
Large ribosomal subunit protein bL21 Chain: BV
Large ribosomal subunit protein uL22 Chain: BW
Large ribosomal subunit protein uL23 Chain: BX
Large ribosomal subunit protein uL24 Chain: BY
Large ribosomal subunit protein bL25 Chain: BZ
16S ribosomal RNA Chain: AA
tRNA Chain: AV
Messenger RNA Chain: AX
23S ribosomal RNA Chain: BA
5S ribosomal RNA Chain: BB

Ligands and Environments

2 bound ligands:
Ligand FUA 1 x FUA
Ligand GDP 1 x GDP
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 7.8Å
Relevant EMDB volumes: EMD-1798
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

57 review citations

Ribosome-targeting antibiotics and mechanisms of bacterial resistance.
Wilson DN. (2014)
56 more

4 mentions without citation

Ribosome Structure, Function, and Early Evolution.
Opron et al. (2018)
3 more