ISDA: 8VUP

Deposition Date 2024-01-29

Release Date 2025-07-30

Last Version Date 2025-07-30

Entry Detail

PDB ID:

8VUP

Keywords:

RIBOSOME

Title:

E. coli 70S ribosome with unmodified tRNAPro(GGG) in the e*/E conformation on a slippery CCC-C codon

Biological Source:

Source Organism:

Escherichia coli (Taxon ID: 562)

Host Organism:

Escherichia coli

Method Details:

Experimental Method:

ELECTRON MICROSCOPY

Resolution:

3.40 Å

Aggregation State:

PARTICLE

Reconstruction Method:

SINGLE PARTICLE

Download Validation Report

Macromolecular Entities

Polymer Type:polyribonucleotide
Molecule:23S ribosomal RNA
Chain IDs:A (auth: 1)
Chain Length:2903
Number of Molecules:1
Biological Source:Escherichia coli

Polymer Type:polyribonucleotide
Molecule:16S ribosomal RNA
Chain IDs:B (auth: 2)
Chain Length:1539
Number of Molecules:1
Biological Source:Escherichia coli

Polymer Type:polyribonucleotide
Molecule:5S ribosomal RNA
Chain IDs:C (auth: 3)
Chain Length:120
Number of Molecules:1
Biological Source:Escherichia coli

Polymer Type:polyribonucleotide
Molecule:mRNA
Chain IDs:D (auth: 4)
Chain Length:18
Number of Molecules:1
Biological Source:Escherichia coli

Polymer Type:polyribonucleotide
Molecule:tRNA^ProL (GGG)
Chain IDs:E (auth: 5)
Chain Length:77
Number of Molecules:1
Biological Source:Escherichia coli

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL1
Gene (Uniprot):rplA
Chain IDs:F (auth: A)
Chain Length:223
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:A0A5P0JAY3 Pfam ID:PF00687

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L2
Gene (Uniprot):rplB
Chain IDs:G (auth: B)
Chain Length:271
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P60422 Pfam ID:PF00181, PF03947

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L3
Gene (Uniprot):rplC
Chain IDs:H (auth: C)
Chain Length:50
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P60438 Pfam ID:PF00297

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L4
Gene (Uniprot):rplD
Chain IDs:I (auth: D)
Chain Length:201
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:A1AGK6 Pfam ID:PF00573

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L5
Gene (Uniprot):rplE
Chain IDs:J (auth: E)
Chain Length:64
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:A0A4P8BX24 Pfam ID:PF00281, PF00673

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL6
Gene (Uniprot):rplF
Chain IDs:K (auth: F)
Chain Length:176
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:C3SR17 Pfam ID:PF00347

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein bL9
Gene (Uniprot):rplI
Chain IDs:L (auth: G)
Chain Length:149
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:C3SFP2 Pfam ID:PF01281, PF03948

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L13
Chain IDs:M (auth: J)
Chain Length:142
Number of Molecules:1
Biological Source:Escherichia coli

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L14
Gene (Uniprot):rplN
Chain IDs:N (auth: K)
Chain Length:122
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:S1NW45 Pfam ID:PF00238

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L15
Gene (Uniprot):rplO
Chain IDs:O (auth: L)
Chain Length:151
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:A0A037Y8L6 Pfam ID:PF00828

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L16
Gene (Uniprot):rplP
Chain IDs:P (auth: M)
Chain Length:136
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P0ADY7 Pfam ID:PF00252

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein bL17
Gene (Uniprot):rplQ
Chain IDs:Q (auth: N)
Chain Length:120
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:A0A2T1LEK9 Pfam ID:PF01196

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L18
Chain IDs:R (auth: O)
Chain Length:116
Number of Molecules:1
Biological Source:Escherichia coli

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L19
Gene (Uniprot):rplS
Chain IDs:S (auth: P)
Chain Length:116
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:S1PSA3 Pfam ID:PF01245

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein bL20
Gene (Uniprot):rplT
Chain IDs:T (auth: Q)
Chain Length:117
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:C3T7Q7 Pfam ID:PF00453

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Ribosomal protein L21
Gene (Uniprot):rplU
Chain IDs:U (auth: R)
Chain Length:114
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:C3SSG2 Pfam ID:PF00829

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L22
Gene (Uniprot):rplV
Chain IDs:V (auth: S)
Chain Length:100
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P61175 Pfam ID:PF00237

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL23
Gene (Uniprot):rplW
Chain IDs:W (auth: T)
Chain Length:93
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:C3SQV2 Pfam ID:PF00276

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL24
Chain IDs:X (auth: U)
Chain Length:82
Number of Molecules:1
Biological Source:Escherichia coli

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L25
Chain IDs:Y (auth: V)
Chain Length:80
Number of Molecules:1
Biological Source:Escherichia coli

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L27
Gene (Uniprot):rpmA
Chain IDs:Z (auth: W)
Chain Length:75
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:A0A1X3JCC7 Pfam ID:PF01016

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L28
Gene (Uniprot):rpmB
Chain IDs:AA (auth: X)
Chain Length:77
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:A0A0E2KZD0 Pfam ID:PF00830

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L29
Chain IDs:BA (auth: Y)
Chain Length:85
Number of Molecules:1
Biological Source:Escherichia coli

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L30
Gene (Uniprot):rpmD
Chain IDs:CA (auth: Z)
Chain Length:65
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P0AG51 Pfam ID:PF00327

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L32
Gene (Uniprot):rpmF
Chain IDs:DA (auth: b)
Chain Length:271
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:A0A828UBL8 Pfam ID:PF01783

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L33
Chain IDs:EA (auth: c)
Chain Length:50
Number of Molecules:1
Biological Source:Escherichia coli

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L34
Gene (Uniprot):rpmH
Chain IDs:FA (auth: d)
Chain Length:201
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:B7MGC4 Pfam ID:PF00468

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L35
Chain IDs:GA (auth: e)
Chain Length:64
Number of Molecules:1
Biological Source:Escherichia coli

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L36
Gene (Uniprot):rpmJ
Chain IDs:HA (auth: f)
Chain Length:176
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:A0A0E2L017 Pfam ID:PF00444

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS3
Gene (Uniprot):rpsC
Chain IDs:IA (auth: h)
Chain Length:206
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P0A7V3 Pfam ID:PF07650, PF00189

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S4
Gene (Uniprot):rpsD
Chain IDs:JA (auth: i)
Chain Length:205
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:C3SR62 Pfam ID:PF00163, PF01479

Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S5
Chain IDs:KA (auth: j)
Chain Length:142
Number of Molecules:1
Biological Source:Escherichia coli

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S6, non-modified isoform
Gene (Uniprot):rpsF
Chain IDs:LA (auth: k)
Chain Length:122
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P02358 Pfam ID:PF01250

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S7
Gene (Uniprot):rpsG
Chain IDs:MA (auth: l)
Chain Length:151
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P02359 Pfam ID:PF00177

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S8
Gene (Uniprot):rpsH
Chain IDs:NA (auth: m)
Chain Length:136
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:A0A828U358 Pfam ID:PF00410

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS9
Gene (Uniprot):rpsI
Chain IDs:OA (auth: n)
Chain Length:120
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:C3SRY2 Pfam ID:PF00380

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S10
Gene (Uniprot):rpsJ
Chain IDs:PA (auth: o)
Chain Length:116
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:A0A0H3EQD3 Pfam ID:PF00338

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS11
Gene (Uniprot):rpsK
Chain IDs:QA (auth: p)
Chain Length:116
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:C3SR57 Pfam ID:PF00411

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS12
Gene (Uniprot):rpsL
Chain IDs:RA (auth: q)
Chain Length:117
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:C3SQR7 Pfam ID:PF00164

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S13
Gene (Uniprot):rpsM
Chain IDs:SA (auth: r)
Chain Length:114
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:S1P5F8 Pfam ID:PF00416

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS14
Gene (Uniprot):rpsN
Chain IDs:TA (auth: s)
Chain Length:100
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:A0A8S0FJJ0 Pfam ID:PF00253

Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S15
Chain IDs:UA (auth: t)
Chain Length:93
Number of Molecules:1
Biological Source:Escherichia coli

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S16
Gene (Uniprot):rpsP
Chain IDs:VA (auth: u)
Chain Length:82
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:C3SYP2 Pfam ID:PF00886

Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S17
Chain IDs:WA (auth: v)
Chain Length:80
Number of Molecules:1
Biological Source:Escherichia coli

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S18
Gene (Uniprot):rpsR
Chain IDs:XA (auth: w)
Chain Length:75
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:E0J6I2 Pfam ID:PF01084

Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S19
Chain IDs:YA (auth: x)
Chain Length:77
Number of Molecules:1
Biological Source:Escherichia coli

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S20
Gene (Uniprot):rpsT
Chain IDs:ZA (auth: y)
Chain Length:85
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:C3TRH7 Pfam ID:PF01649

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein bS21
Gene (Uniprot):rpsU
Chain IDs:AB (auth: z)
Chain Length:65
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P68679 Pfam ID:PF01165

Ligand Molecules

Primary Citation

The influence of EF-P on mRNA reading frame maintenance

Kimbrough, E.M, Nguyen, H.A, Li, H, Gamper, H, Hou, Y.M, Gonzalez, R.L, Dunham, C.M.Show

To Be Published ? ? ? (?)

Primary Citation of related structures

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