3j16

Models of ribosome-bound Dom34p and Rli1p and their ribosomal binding partners

Method: ELECTRON MICROSCOPY
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1. Protein Identity and Related Structures Protein Identity & Related Structures

Dom34p

OrganismNot specified

UniProt P33309

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–RNA Heteromer Protein 9 RNA 3 Rli1p × 1 (Q03195) 28S ribosomal RNA × 1 18S ribosomal RNA × 1 P-site tRNA × 1 60S ribosomal protein L6 × 1 (P05738) 40S ribosomal protein S30E × 1 (P0CX33) 60S ribosomal protein L10 × 1 (P05317) 40S ribosomal protein S6E × 1 (P0CX37) 60S ribosomal protein L11 × 1 (P0CX53) 40S ribosomal protein S24E × 1 (P0CX41) 40S ribosomal protein S24-A × 1 (P0CX31) MAGNESIUM ION × 1 ADENOSINE-5'-TRIPHOSPHATE × 1 IRON/SULFUR CLUSTER × 2 water × 1 Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name DOM34_YEAST
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–386; UniProt 1–386

Rli1p

OrganismNot specified

UniProt Q03195

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–RNA Heteromer Protein 9 RNA 3 Dom34p × 1 (P33309) 28S ribosomal RNA × 1 18S ribosomal RNA × 1 P-site tRNA × 1 60S ribosomal protein L6 × 1 (P05738) 40S ribosomal protein S30E × 1 (P0CX33) 60S ribosomal protein L10 × 1 (P05317) 40S ribosomal protein S6E × 1 (P0CX37) 60S ribosomal protein L11 × 1 (P0CX53) 40S ribosomal protein S24E × 1 (P0CX41) 40S ribosomal protein S24-A × 1 (P0CX31) MAGNESIUM ION × 1 ADENOSINE-5'-TRIPHOSPHATE × 1 IRON/SULFUR CLUSTER × 2 water × 1 Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name RLI1_YEAST
Isoform —
PDB entities 2
Chains and sequence ranges Author chain B; PDBConstruct 1–608; UniProt 1–608

60S ribosomal protein L6

OrganismNot specified

UniProt P05738

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–RNA Heteromer Protein 9 RNA 3 Dom34p × 1 (P33309) Rli1p × 1 (Q03195) 28S ribosomal RNA × 1 18S ribosomal RNA × 1 P-site tRNA × 1 40S ribosomal protein S30E × 1 (P0CX33) 60S ribosomal protein L10 × 1 (P05317) 40S ribosomal protein S6E × 1 (P0CX37) 60S ribosomal protein L11 × 1 (P0CX53) 40S ribosomal protein S24E × 1 (P0CX41) 40S ribosomal protein S24-A × 1 (P0CX31) MAGNESIUM ION × 1 ADENOSINE-5'-TRIPHOSPHATE × 1 IRON/SULFUR CLUSTER × 2 water × 1 Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name RL9A_YEAST
Isoform —
PDB entities 6
Chains and sequence ranges Author chain F; PDBConstruct 1–191; UniProt 1–191

40S ribosomal protein S30E

OrganismNot specified

UniProt P0CX33

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–RNA Heteromer Protein 9 RNA 3 Dom34p × 1 (P33309) Rli1p × 1 (Q03195) 28S ribosomal RNA × 1 18S ribosomal RNA × 1 P-site tRNA × 1 60S ribosomal protein L6 × 1 (P05738) 60S ribosomal protein L10 × 1 (P05317) 40S ribosomal protein S6E × 1 (P0CX37) 60S ribosomal protein L11 × 1 (P0CX53) 40S ribosomal protein S24E × 1 (P0CX41) 40S ribosomal protein S24-A × 1 (P0CX31) MAGNESIUM ION × 1 ADENOSINE-5'-TRIPHOSPHATE × 1 IRON/SULFUR CLUSTER × 2 water × 1 Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name RS30A_YEAST
Isoform —
PDB entities 7
Chains and sequence ranges Author chain E; PDBConstruct 1–63; UniProt 1–63

60S ribosomal protein L10

OrganismNot specified

UniProt P05317

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–RNA Heteromer Protein 9 RNA 3 Dom34p × 1 (P33309) Rli1p × 1 (Q03195) 28S ribosomal RNA × 1 18S ribosomal RNA × 1 P-site tRNA × 1 60S ribosomal protein L6 × 1 (P05738) 40S ribosomal protein S30E × 1 (P0CX33) 40S ribosomal protein S6E × 1 (P0CX37) 60S ribosomal protein L11 × 1 (P0CX53) 40S ribosomal protein S24E × 1 (P0CX41) 40S ribosomal protein S24-A × 1 (P0CX31) MAGNESIUM ION × 1 ADENOSINE-5'-TRIPHOSPHATE × 1 IRON/SULFUR CLUSTER × 2 water × 1 Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name RLA0_YEAST
Isoform —
PDB entities 8
Chains and sequence ranges Author chain G; PDBConstruct 1–312; UniProt 1–312

40S ribosomal protein S6E

OrganismNot specified

UniProt P0CX37

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–RNA Heteromer Protein 9 RNA 3 Dom34p × 1 (P33309) Rli1p × 1 (Q03195) 28S ribosomal RNA × 1 18S ribosomal RNA × 1 P-site tRNA × 1 60S ribosomal protein L6 × 1 (P05738) 40S ribosomal protein S30E × 1 (P0CX33) 60S ribosomal protein L10 × 1 (P05317) 60S ribosomal protein L11 × 1 (P0CX53) 40S ribosomal protein S24E × 1 (P0CX41) 40S ribosomal protein S24-A × 1 (P0CX31) MAGNESIUM ION × 1 ADENOSINE-5'-TRIPHOSPHATE × 1 IRON/SULFUR CLUSTER × 2 water × 1 Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name RS6A_YEAST
Isoform —
PDB entities 9
Chains and sequence ranges Author chain C; PDBConstruct 1–236; UniProt 1–236

60S ribosomal protein L11

OrganismNot specified

UniProt P0CX53

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–RNA Heteromer Protein 9 RNA 3 Dom34p × 1 (P33309) Rli1p × 1 (Q03195) 28S ribosomal RNA × 1 18S ribosomal RNA × 1 P-site tRNA × 1 60S ribosomal protein L6 × 1 (P05738) 40S ribosomal protein S30E × 1 (P0CX33) 60S ribosomal protein L10 × 1 (P05317) 40S ribosomal protein S6E × 1 (P0CX37) 40S ribosomal protein S24E × 1 (P0CX41) 40S ribosomal protein S24-A × 1 (P0CX31) MAGNESIUM ION × 1 ADENOSINE-5'-TRIPHOSPHATE × 1 IRON/SULFUR CLUSTER × 2 water × 1 Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name RL12A_YEAST
Isoform —
PDB entities 10
Chains and sequence ranges Author chain H; PDBConstruct 1–165; UniProt 1–165

40S ribosomal protein S24E

OrganismNot specified

UniProt P0CX41

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–RNA Heteromer Protein 9 RNA 3 Dom34p × 1 (P33309) Rli1p × 1 (Q03195) 28S ribosomal RNA × 1 18S ribosomal RNA × 1 P-site tRNA × 1 60S ribosomal protein L6 × 1 (P05738) 40S ribosomal protein S30E × 1 (P0CX33) 60S ribosomal protein L10 × 1 (P05317) 40S ribosomal protein S6E × 1 (P0CX37) 60S ribosomal protein L11 × 1 (P0CX53) 40S ribosomal protein S24-A × 1 (P0CX31) MAGNESIUM ION × 1 ADENOSINE-5'-TRIPHOSPHATE × 1 IRON/SULFUR CLUSTER × 2 water × 1 Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name RL23A_YEAST
Isoform —
PDB entities 11
Chains and sequence ranges Author chain I; PDBConstruct 1–137; UniProt 1–137

40S ribosomal protein S24-A

OrganismNot specified

UniProt P0CX31

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–RNA Heteromer Protein 9 RNA 3 Dom34p × 1 (P33309) Rli1p × 1 (Q03195) 28S ribosomal RNA × 1 18S ribosomal RNA × 1 P-site tRNA × 1 60S ribosomal protein L6 × 1 (P05738) 40S ribosomal protein S30E × 1 (P0CX33) 60S ribosomal protein L10 × 1 (P05317) 40S ribosomal protein S6E × 1 (P0CX37) 60S ribosomal protein L11 × 1 (P0CX53) 40S ribosomal protein S24E × 1 (P0CX41) MAGNESIUM ION × 1 ADENOSINE-5'-TRIPHOSPHATE × 1 IRON/SULFUR CLUSTER × 2 water × 1 Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name RS24A_YEAST
Isoform —
PDB entities 12
Chains and sequence ranges Author chain D; PDBConstruct 1–135; UniProt 1–135

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

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2. Structure Basics 2. Structure Basics

Entry ID entry_id3j16
Deposition date deposition_date2011-12-12
Structure title titleModels of ribosome-bound Dom34p and Rli1p and their ribosomal binding partners
Keywords keywordsribosome recycling, translation, eukarya, RIBOSOME; RIBOSOME
Experimental Method methodELECTRON MICROSCOPY
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3. Official assembly/model SAXS Official SAXS Profiles

This page reads only the latest assembly calculations. Every curve maps to an explicit PDB entry, official biological assembly and coordinate model.

3j16__assembly_1__model_1

Assembly 1 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

3j16__assembly_1__model_1 | I(q)

10-2 10-1 106 107 108 109 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

3j16__assembly_1__model_1 | P(r) · Pending

The new assembly/model P(r) has not been calculated yet This placeholder does not display legacy data r (Angstrom) P(r)
P(r) will be calculated and displayed separately for the same assembly/model.
Rg(Guinier)58.59 Å
Rg (electron density)58.57 Å
Total Rg58.55 Å
Atom count26207
Residues2536
Excluded volume434190 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 3j16__assembly_1__model_1 dodecameric (12) Success 4.1.3-1-20251215 (887e7ef) View Download
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4. Crystallography and Experiment 4. Crystallography & Experiment

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5. Entities and Polymers Entities & Polymers (16)

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7. Citations (1)