4V5M image
Entry Detail
PDB ID:
4V5M
Keywords:
Title:
tRNA tranlocation on the 70S ribosome: the pre-translocational translocation intermediate TI(PRE)
Biological Source:
Host Organism:
PDB Version:
Deposition Date:
2010-10-01
Release Date:
2014-07-09
Method Details:
Experimental Method:
Resolution:
7.80 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Polymer Type:polyribonucleotide
Description:16S RRNA
Chain IDs:A (auth: AA)
Chain Length:1522
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:30S RIBOSOMAL PROTEIN S2
Chain IDs:B (auth: AB)
Chain Length:256
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:30S RIBOSOMAL PROTEIN S3
Chain IDs:C (auth: AC)
Chain Length:239
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:30S RIBOSOMAL PROTEIN S4
Chain IDs:D (auth: AD)
Chain Length:209
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:30S RIBOSOMAL PROTEIN S5
Chain IDs:E (auth: AE)
Chain Length:162
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:30S RIBOSOMAL PROTEIN S6
Chain IDs:F (auth: AF)
Chain Length:101
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:30S RIBOSOMAL PROTEIN S7
Chain IDs:G (auth: AG)
Chain Length:156
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:30S RIBOSOMAL PROTEIN S8
Chain IDs:H (auth: AH)
Chain Length:138
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:30S RIBOSOMAL PROTEIN S9
Chain IDs:I (auth: AI)
Chain Length:128
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:30S RIBOSOMAL PROTEIN S10
Chain IDs:J (auth: AJ)
Chain Length:105
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:30S RIBOSOMAL PROTEIN S11
Chain IDs:K (auth: AK)
Chain Length:129
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:30S RIBOSOMAL PROTEIN S12
Chain IDs:L (auth: AL)
Chain Length:132
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:30S RIBOSOMAL PROTEIN S13
Chain IDs:M (auth: AM)
Chain Length:126
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:30S RIBOSOMAL PROTEIN S14 TYPE Z
Chain IDs:N (auth: AN)
Chain Length:61
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:30S RIBOSOMAL PROTEIN S15
Chain IDs:O (auth: AO)
Chain Length:89
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:30S RIBOSOMAL PROTEIN S16
Chain IDs:P (auth: AP)
Chain Length:88
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:30S RIBOSOMAL PROTEIN S17
Chain IDs:Q (auth: AQ)
Chain Length:105
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:30S RIBOSOMAL PROTEIN S18
Chain IDs:R (auth: AR)
Chain Length:88
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:30S RIBOSOMAL PROTEIN S19
Chain IDs:S (auth: AS)
Chain Length:93
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:30S RIBOSOMAL PROTEIN S20
Chain IDs:T (auth: AT)
Chain Length:106
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:30S RIBOSOMAL PROTEIN THX
Chain IDs:U (auth: AU)
Chain Length:27
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polyribonucleotide
Description:TRNA
Chain IDs:V (auth: AV)
Chain Length:77
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polyribonucleotide
Description:MRNA
Chain IDs:W (auth: AX)
Chain Length:11
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:ELONGATION FACTOR G
Chain IDs:X (auth: AY)
Chain Length:691
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:50S RIBOSOMAL PROTEIN L27
Chain IDs:Y (auth: B0)
Chain Length:85
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:50S RIBOSOMAL PROTEIN L28
Chain IDs:Z (auth: B1)
Chain Length:98
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:50S RIBOSOMAL PROTEIN L29
Chain IDs:AA (auth: B2)
Chain Length:72
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:50S RIBOSOMAL PROTEIN L30
Chain IDs:BA (auth: B3)
Chain Length:60
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:50S RIBOSOMAL PROTEIN L31
Chain IDs:CA (auth: B4)
Chain Length:71
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:50S RIBOSOMAL PROTEIN L32
Chain IDs:DA (auth: B5)
Chain Length:60
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:50S RIBOSOMAL PROTEIN L33
Chain IDs:EA (auth: B6)
Chain Length:54
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:50S RIBOSOMAL PROTEIN L34
Chain IDs:FA (auth: B7)
Chain Length:49
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:50S RIBOSOMAL PROTEIN L35
Chain IDs:GA (auth: B8)
Chain Length:65
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:50S RIBOSOMAL PROTEIN L36
Chain IDs:HA (auth: B9)
Chain Length:37
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polyribonucleotide
Description:23S RIBOSOMAL RNA
Chain IDs:IA (auth: BA)
Chain Length:2915
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polyribonucleotide
Description:5S RIBOSOMAL RNA
Chain IDs:JA (auth: BB)
Chain Length:122
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:50S RIBOSOMAL PROTEIN L1
Chain IDs:KA (auth: BC)
Chain Length:229
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:50S RIBOSOMAL PROTEIN L2
Chain IDs:LA (auth: BD)
Chain Length:276
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:50S RIBOSOMAL PROTEIN L3
Chain IDs:MA (auth: BE)
Chain Length:206
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:50S RIBOSOMAL PROTEIN L4
Chain IDs:NA (auth: BF)
Chain Length:210
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:50S RIBOSOMAL PROTEIN L5
Chain IDs:OA (auth: BG)
Chain Length:182
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:50S RIBOSOMAL PROTEIN L6
Chain IDs:PA (auth: BH)
Chain Length:180
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:50S RIBOSOMAL PROTEIN L11
Chain IDs:QA (auth: BK)
Chain Length:147
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:50S RIBOSOMAL PROTEIN L7/L12
Chain IDs:RA (auth: BL)
Chain Length:121
Number of Molecules:1
Biological Source:ESCHERICHIA COLI
Polymer Type:polypeptide(L)
Description:50S RIBOSOMAL PROTEIN L13
Chain IDs:SA (auth: BN)
Chain Length:140
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:50S RIBOSOMAL PROTEIN L14
Chain IDs:TA (auth: BO)
Chain Length:122
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:50S RIBOSOMAL PROTEIN L15
Chain IDs:UA (auth: BP)
Chain Length:150
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:50S RIBOSOMAL PROTEIN L16
Chain IDs:VA (auth: BQ)
Chain Length:141
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:50S RIBOSOMAL PROTEIN L17
Chain IDs:WA (auth: BR)
Chain Length:118
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:50S RIBOSOMAL PROTEIN L18
Chain IDs:XA (auth: BS)
Chain Length:112
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:50S RIBOSOMAL PROTEIN L19
Chain IDs:YA (auth: BT)
Chain Length:146
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:50S RIBOSOMAL PROTEIN L20
Chain IDs:ZA (auth: BU)
Chain Length:118
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:50S RIBOSOMAL PROTEIN L21
Chain IDs:AB (auth: BV)
Chain Length:101
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:50S RIBOSOMAL PROTEIN L22
Chain IDs:BB (auth: BW)
Chain Length:113
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:50S RIBOSOMAL PROTEIN L23
Chain IDs:CB (auth: BX)
Chain Length:96
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:50S RIBOSOMAL PROTEIN L24
Chain IDs:DB (auth: BY)
Chain Length:110
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Polymer Type:polypeptide(L)
Description:50S RIBOSOMAL PROTEIN L25
Chain IDs:EB (auth: BZ)
Chain Length:206
Number of Molecules:1
Biological Source:THERMUS THERMOPHILUS
Primary Citation
Head Swivel on the Ribosome Facilitates Translocation by Means of Intra-Subunit tRNA Hybrid Sites.
Nature 468 713 ? (2010)
PMID: 21124459 DOI: 10.1038/NATURE09547

Abstact

The elongation cycle of protein synthesis involves the delivery of aminoacyl-transfer RNAs to the aminoacyl-tRNA-binding site (A site) of the ribosome, followed by peptide-bond formation and translocation of the tRNAs through the ribosome to reopen the A site. The translocation reaction is catalysed by elongation factor G (EF-G) in a GTP-dependent manner. Despite the availability of structures of various EF-G-ribosome complexes, the precise mechanism by which tRNAs move through the ribosome still remains unclear. Here we use multiparticle cryoelectron microscopy analysis to resolve two previously unseen subpopulations within Thermus thermophilus EF-G-ribosome complexes at subnanometre resolution, one of them with a partly translocated tRNA. Comparison of these substates reveals that translocation of tRNA on the 30S subunit parallels the swivelling of the 30S head and is coupled to unratcheting of the 30S body. Because the tRNA maintains contact with the peptidyl-tRNA-binding site (P site) on the 30S head and simultaneously establishes interaction with the exit site (E site) on the 30S platform, a novel intra-subunit 'pe/E' hybrid state is formed. This state is stabilized by domain IV of EF-G, which interacts with the swivelled 30S-head conformation. These findings provide direct structural and mechanistic insight into the 'missing link' in terms of tRNA intermediates involved in the universally conserved translocation process.

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