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Atomic structure of wheat ribosome reveals unique features of the plant ribosomes

Electron Microscopy
2.88Å resolution
PDB entry 8jiw coloured by chain, front view.
PDB entry 8jiw coloured by chain, side view.
PDB entry 8jiw coloured by chain, top view.
Source organism: Triticum aestivum
Assembly composition:
hetero 33-mer (preferred)
Entry contents: 32 distinct polypeptide molecules
1 distinct RNA molecule

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Assemblies

Assembly 1 (preferred)
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Assembly Name: 30S ribosome subunit,40S ribosome subunit and Mitogen-activated protein kinase and RNA
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Multimeric state: hetero 33-mer
Accessible surface area: 357550.31 Å2
Buried surface area: 210361.44 Å2
Dissociation area: 2,507.59 Å2
Dissociation energy (ΔGdiss): -1.72 kcal/mol
Dissociation entropy (TΔSdiss): 26.52 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-278966

Macromolecules

Small ribosomal subunit protein uS2
Chain: BA
Length: 304 amino acids
Theoretical weight: 32.93 KDa
Source organism: Triticum aestivum
UniProt:
  • Canonical: A0A3B6AV88 (Residues: 1-304; Coverage: 100%)
Pfam:
Small ribosomal subunit protein uS2 in PDB entry 8jiw, assembly 1, front view.
Small ribosomal subunit protein uS2 in PDB entry 8jiw, assembly 1, side view.
Small ribosomal subunit protein uS2 in PDB entry 8jiw, assembly 1, top view.
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Small ribosomal subunit protein eS1
Chain: BB
Length: 263 amino acids
Theoretical weight: 30.04 KDa
Source organism: Triticum aestivum
UniProt:
  • Canonical: A0A3B6IU74 (Residues: 1-263; Coverage: 100%)
Pfam: Ribosomal S3Ae family
Small ribosomal subunit protein eS1 in PDB entry 8jiw, assembly 1, front view.
Small ribosomal subunit protein eS1 in PDB entry 8jiw, assembly 1, side view.
Small ribosomal subunit protein eS1 in PDB entry 8jiw, assembly 1, top view.
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S5 DRBM domain-containing protein
Chain: BC
Length: 279 amino acids
Theoretical weight: 30.48 KDa
Source organism: Triticum aestivum
UniProt:
  • Canonical: A0A3B6N0N5 (Residues: 1-279; Coverage: 100%)
Gene name: LOC123123361
Pfam:
S5 DRBM domain-containing protein in PDB entry 8jiw, assembly 1, front view.
S5 DRBM domain-containing protein in PDB entry 8jiw, assembly 1, side view.
S5 DRBM domain-containing protein in PDB entry 8jiw, assembly 1, top view.
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40S ribosomal protein S4
Chain: BE
Length: 265 amino acids
Theoretical weight: 30.01 KDa
Source organism: Triticum aestivum
UniProt:
  • Canonical: A0A1D5SLI4 (Residues: 1-265; Coverage: 100%)
Gene name: LOC123191404
Pfam:
40S ribosomal protein S4 in PDB entry 8jiw, assembly 1, front view.
40S ribosomal protein S4 in PDB entry 8jiw, assembly 1, side view.
40S ribosomal protein S4 in PDB entry 8jiw, assembly 1, top view.
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40S ribosomal protein S6
Chain: BG
Length: 250 amino acids
Theoretical weight: 28.52 KDa
Source organism: Triticum aestivum
UniProt:
  • Canonical: W5C8N6 (Residues: 1-250; Coverage: 100%)
Pfam: Ribosomal protein S6e
40S ribosomal protein S6 in PDB entry 8jiw, assembly 1, front view.
40S ribosomal protein S6 in PDB entry 8jiw, assembly 1, side view.
40S ribosomal protein S6 in PDB entry 8jiw, assembly 1, top view.
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40S ribosomal protein S7
Chain: BH
Length: 192 amino acids
Theoretical weight: 22.3 KDa
Source organism: Triticum aestivum
UniProt:
  • Canonical: Q5I7K2 (Residues: 1-192; Coverage: 100%)
Gene name: LOC123085612
Pfam: Ribosomal protein S7e
40S ribosomal protein S7 in PDB entry 8jiw, assembly 1, front view.
40S ribosomal protein S7 in PDB entry 8jiw, assembly 1, side view.
40S ribosomal protein S7 in PDB entry 8jiw, assembly 1, top view.
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40S ribosomal protein S8
Chain: BI
Length: 224 amino acids
Theoretical weight: 25.19 KDa
Source organism: Triticum aestivum
UniProt:
  • Canonical: A0A3B6C6G0 (Residues: 1-224; Coverage: 100%)
Pfam: Ribosomal protein S8e
40S ribosomal protein S8 in PDB entry 8jiw, assembly 1, front view.
40S ribosomal protein S8 in PDB entry 8jiw, assembly 1, side view.
40S ribosomal protein S8 in PDB entry 8jiw, assembly 1, top view.
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30S ribosomal protein S4, chloroplastic
Chain: BJ
Length: 195 amino acids
Theoretical weight: 22.53 KDa
Source organism: Triticum aestivum
UniProt:
  • Canonical: W5FPA7 (Residues: 1-195; Coverage: 100%)
Gene name: LOC543424
Pfam:
30S ribosomal protein S4, chloroplastic in PDB entry 8jiw, assembly 1, front view.
30S ribosomal protein S4, chloroplastic in PDB entry 8jiw, assembly 1, side view.
30S ribosomal protein S4, chloroplastic in PDB entry 8jiw, assembly 1, top view.
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Small ribosomal subunit protein uS17 N-terminal domain-containing protein
Chain: BL
Length: 161 amino acids
Theoretical weight: 18.14 KDa
Source organism: Triticum aestivum
UniProt:
  • Canonical: A0A3B6QHW3 (Residues: 1-161; Coverage: 100%)
Gene name: LOC123144808
Pfam:
Small ribosomal subunit protein uS17 N-terminal domain-containing protein in PDB entry 8jiw, assembly 1, front view.
Small ribosomal subunit protein uS17 N-terminal domain-containing protein in PDB entry 8jiw, assembly 1, side view.
Small ribosomal subunit protein uS17 N-terminal domain-containing protein in PDB entry 8jiw, assembly 1, top view.
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Small ribosomal subunit protein uS15 N-terminal domain-containing protein
Chain: BN
Length: 151 amino acids
Theoretical weight: 17.13 KDa
Source organism: Triticum aestivum
UniProt:
  • Canonical: W5I035 (Residues: 1-151; Coverage: 100%)
Gene name: LOC123159498
Pfam:
Small ribosomal subunit protein uS15 N-terminal domain-containing protein in PDB entry 8jiw, assembly 1, front view.
Small ribosomal subunit protein uS15 N-terminal domain-containing protein in PDB entry 8jiw, assembly 1, side view.
Small ribosomal subunit protein uS15 N-terminal domain-containing protein in PDB entry 8jiw, assembly 1, top view.
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30S ribosomal protein S11, chloroplastic
Chain: BO
Length: 151 amino acids
Theoretical weight: 16.4 KDa
Source organism: Triticum aestivum
UniProt:
  • Canonical: A0A3B6SS17 (Residues: 1-151; Coverage: 100%)
Gene name: LOC123157862
Pfam: Ribosomal protein S11
30S ribosomal protein S11, chloroplastic in PDB entry 8jiw, assembly 1, front view.
30S ribosomal protein S11, chloroplastic in PDB entry 8jiw, assembly 1, side view.
30S ribosomal protein S11, chloroplastic in PDB entry 8jiw, assembly 1, top view.
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40S ribosomal protein S17
Chain: BR
Length: 143 amino acids
Theoretical weight: 16.48 KDa
Source organism: Triticum aestivum
UniProt:
  • Canonical: A0A3B5XY60 (Residues: 1-143; Coverage: 100%)
Pfam: Ribosomal S17
40S ribosomal protein S17 in PDB entry 8jiw, assembly 1, front view.
40S ribosomal protein S17 in PDB entry 8jiw, assembly 1, side view.
40S ribosomal protein S17 in PDB entry 8jiw, assembly 1, top view.
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40S ribosomal protein S21
Chain: BV
Length: 82 amino acids
Theoretical weight: 9.19 KDa
Source organism: Triticum aestivum
UniProt:
  • Canonical: W5EL62 (Residues: 1-82; Coverage: 100%)
Pfam: Ribosomal protein S21e
40S ribosomal protein S21 in PDB entry 8jiw, assembly 1, front view.
40S ribosomal protein S21 in PDB entry 8jiw, assembly 1, side view.
40S ribosomal protein S21 in PDB entry 8jiw, assembly 1, top view.
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Small ribosomal subunit protein uS8c
Chain: BW
Length: 130 amino acids
Theoretical weight: 14.82 KDa
Source organism: Triticum aestivum
UniProt:
  • Canonical: E2F3W4 (Residues: 1-130; Coverage: 100%)
Gene name: TRAES_3BF117500090CFD_c1
Pfam: Ribosomal protein S8
Small ribosomal subunit protein uS8c in PDB entry 8jiw, assembly 1, front view.
Small ribosomal subunit protein uS8c in PDB entry 8jiw, assembly 1, side view.
Small ribosomal subunit protein uS8c in PDB entry 8jiw, assembly 1, top view.
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40S ribosomal protein S23
Chain: BX
Length: 142 amino acids
Theoretical weight: 15.7 KDa
Source organism: Triticum aestivum
UniProt:
  • Canonical: W5FV77 (Residues: 1-142; Coverage: 100%)
Gene names: LOC123059459, LOC123105643, LOC123123461
Pfam: Ribosomal protein S12/S23
40S ribosomal protein S23 in PDB entry 8jiw, assembly 1, front view.
40S ribosomal protein S23 in PDB entry 8jiw, assembly 1, side view.
40S ribosomal protein S23 in PDB entry 8jiw, assembly 1, top view.
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40S ribosomal protein S24
Chain: BY
Length: 137 amino acids
Theoretical weight: 15.74 KDa
Source organism: Triticum aestivum
UniProt:
  • Canonical: A0A3B6PK86 (Residues: 1-137; Coverage: 100%)
Pfam: Ribosomal protein S24e
40S ribosomal protein S24 in PDB entry 8jiw, assembly 1, front view.
40S ribosomal protein S24 in PDB entry 8jiw, assembly 1, side view.
40S ribosomal protein S24 in PDB entry 8jiw, assembly 1, top view.
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40S ribosomal protein S26
Chain: Ba
Length: 139 amino acids
Theoretical weight: 15.32 KDa
Source organism: Triticum aestivum
UniProt:
  • Canonical: A0A3B6KQB8 (Residues: 1-139; Coverage: 100%)
Pfam: Ribosomal protein S26e
40S ribosomal protein S26 in PDB entry 8jiw, assembly 1, front view.
40S ribosomal protein S26 in PDB entry 8jiw, assembly 1, side view.
40S ribosomal protein S26 in PDB entry 8jiw, assembly 1, top view.
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40S ribosomal protein S27
Chain: Bb
Length: 86 amino acids
Theoretical weight: 9.58 KDa
Source organism: Triticum aestivum
UniProt:
  • Canonical: A0A341UET3 (Residues: 5-90; Coverage: 96%)
Pfam: Ribosomal protein S27
40S ribosomal protein S27 in PDB entry 8jiw, assembly 1, front view.
40S ribosomal protein S27 in PDB entry 8jiw, assembly 1, side view.
40S ribosomal protein S27 in PDB entry 8jiw, assembly 1, top view.
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40S ribosomal protein S30
Chain: Be
Length: 62 amino acids
Theoretical weight: 6.93 KDa
Source organism: Triticum aestivum
UniProt:
  • Canonical: A0A3B6S9M7 (Residues: 1-62; Coverage: 100%)
Pfam: Ribosomal protein S30
40S ribosomal protein S30 in PDB entry 8jiw, assembly 1, front view.
40S ribosomal protein S30 in PDB entry 8jiw, assembly 1, side view.
40S ribosomal protein S30 in PDB entry 8jiw, assembly 1, top view.
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Small ribosomal subunit protein eS32
Chain: Cn
Length: 25 amino acids
Theoretical weight: 3.45 KDa
Source organism: Triticum aestivum
UniProt:
  • Canonical: P62124 (Residues: 1-25; Coverage: 100%)
Gene name: RPL41
Pfam: Ribosomal protein L41
Small ribosomal subunit protein eS32 in PDB entry 8jiw, assembly 1, front view.
Small ribosomal subunit protein eS32 in PDB entry 8jiw, assembly 1, side view.
Small ribosomal subunit protein eS32 in PDB entry 8jiw, assembly 1, top view.
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30S ribosomal protein S3, chloroplastic
Chain: BD
Length: 227 amino acids
Theoretical weight: 25.4 KDa
Source organism: Triticum aestivum
UniProt:
  • Canonical: W5I1R7 (Residues: 1-227; Coverage: 100%)
Gene names: LOC123164128, LOC543076
Pfam:
30S ribosomal protein S3, chloroplastic in PDB entry 8jiw, assembly 1, front view.
30S ribosomal protein S3, chloroplastic in PDB entry 8jiw, assembly 1, side view.
30S ribosomal protein S3, chloroplastic in PDB entry 8jiw, assembly 1, top view.
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Small ribosomal subunit protein uS7c
Chain: BF
Length: 200 amino acids
Theoretical weight: 22.35 KDa
Source organism: Triticum aestivum
UniProt:
  • Canonical: W5D067 (Residues: 1-200; Coverage: 100%)
Pfam: Ribosomal protein S7p/S5e
Small ribosomal subunit protein uS7c in PDB entry 8jiw, assembly 1, front view.
Small ribosomal subunit protein uS7c in PDB entry 8jiw, assembly 1, side view.
Small ribosomal subunit protein uS7c in PDB entry 8jiw, assembly 1, top view.
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Plectin/eS10 N-terminal domain-containing protein
Chain: BK
Length: 188 amino acids
Theoretical weight: 20.46 KDa
Source organism: Triticum aestivum
UniProt:
  • Canonical: W5AUH7 (Residues: 1-188; Coverage: 100%)
Pfam: Plectin/S10 domain
Plectin/eS10 N-terminal domain-containing protein in PDB entry 8jiw, assembly 1, front view.
Plectin/eS10 N-terminal domain-containing protein in PDB entry 8jiw, assembly 1, side view.
Plectin/eS10 N-terminal domain-containing protein in PDB entry 8jiw, assembly 1, top view.
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40S ribosomal protein S15
Chain: BP
Length: 153 amino acids
Theoretical weight: 17.3 KDa
Source organism: Triticum aestivum
UniProt:
  • Canonical: A0A3B6LV48 (Residues: 1-153; Coverage: 100%)
Gene name: LOC123113717
Pfam: Ribosomal protein S19
40S ribosomal protein S15 in PDB entry 8jiw, assembly 1, front view.
40S ribosomal protein S15 in PDB entry 8jiw, assembly 1, side view.
40S ribosomal protein S15 in PDB entry 8jiw, assembly 1, top view.
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40S ribosomal protein S16
Chain: BQ
Length: 149 amino acids
Theoretical weight: 16.87 KDa
Source organism: Triticum aestivum
UniProt:
  • Canonical: A0A3B6HX49 (Residues: 1-149; Coverage: 100%)
Gene name: LOC123086419
Pfam: Ribosomal protein S9/S16
40S ribosomal protein S16 in PDB entry 8jiw, assembly 1, front view.
40S ribosomal protein S16 in PDB entry 8jiw, assembly 1, side view.
40S ribosomal protein S16 in PDB entry 8jiw, assembly 1, top view.
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40S ribosomal protein S18
Chain: BS
Length: 152 amino acids
Theoretical weight: 17.68 KDa
Source organism: Triticum aestivum
UniProt:
  • Canonical: A0A3B6TWW5 (Residues: 1-152; Coverage: 100%)
Pfam: Ribosomal protein S13/S18
40S ribosomal protein S18 in PDB entry 8jiw, assembly 1, front view.
40S ribosomal protein S18 in PDB entry 8jiw, assembly 1, side view.
40S ribosomal protein S18 in PDB entry 8jiw, assembly 1, top view.
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40S ribosomal protein S19
Chain: BT
Length: 155 amino acids
Theoretical weight: 17.1 KDa
Source organism: Triticum aestivum
UniProt:
  • Canonical: W5FWF5 (Residues: 1-155; Coverage: 100%)
Pfam: Ribosomal protein S19e
40S ribosomal protein S19 in PDB entry 8jiw, assembly 1, front view.
40S ribosomal protein S19 in PDB entry 8jiw, assembly 1, side view.
40S ribosomal protein S19 in PDB entry 8jiw, assembly 1, top view.
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Small ribosomal subunit protein uS10 domain-containing protein
Chain: BU
Length: 117 amino acids
Theoretical weight: 13.04 KDa
Source organism: Triticum aestivum
UniProt:
  • Canonical: A0A3B6MKF1 (Residues: 11-127; Coverage: 92%)
Pfam: Ribosomal protein S10p/S20e
Small ribosomal subunit protein uS10 domain-containing protein in PDB entry 8jiw, assembly 1, front view.
Small ribosomal subunit protein uS10 domain-containing protein in PDB entry 8jiw, assembly 1, side view.
Small ribosomal subunit protein uS10 domain-containing protein in PDB entry 8jiw, assembly 1, top view.
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40S ribosomal protein S28
Chain: Bc
Length: 65 amino acids
Theoretical weight: 7.48 KDa
Source organism: Triticum aestivum
UniProt:
  • Canonical: W5E8X2 (Residues: 1-65; Coverage: 100%)
Pfam: Ribosomal protein S28e
40S ribosomal protein S28 in PDB entry 8jiw, assembly 1, front view.
40S ribosomal protein S28 in PDB entry 8jiw, assembly 1, side view.
40S ribosomal protein S28 in PDB entry 8jiw, assembly 1, top view.
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40S ribosomal protein S29
Chain: Bd
Length: 56 amino acids
Theoretical weight: 6.42 KDa
Source organism: Triticum aestivum
UniProt:
  • Canonical: A0A1D5ZKM9 (Residues: 1-56; Coverage: 100%)
Gene name: LOC123122982
Pfam: Ribosomal protein S14p/S29e
40S ribosomal protein S29 in PDB entry 8jiw, assembly 1, front view.
40S ribosomal protein S29 in PDB entry 8jiw, assembly 1, side view.
40S ribosomal protein S29 in PDB entry 8jiw, assembly 1, top view.
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Mitogen-activated protein kinase
Chain: Bg
Length: 335 amino acids
Theoretical weight: 36.31 KDa
Source organism: Triticum aestivum
UniProt:
  • Canonical: A0A3B5Z4Q0 (Residues: 1-335; Coverage: 100%)
Pfam: WD domain, G-beta repeat
Mitogen-activated protein kinase in PDB entry 8jiw, assembly 1, front view.
Mitogen-activated protein kinase in PDB entry 8jiw, assembly 1, side view.
Mitogen-activated protein kinase in PDB entry 8jiw, assembly 1, top view.
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40S ribosomal protein S25
Chain: BZ
Length: 98 amino acids
Theoretical weight: 10.86 KDa
Source organism: Triticum aestivum
UniProt:
  • Canonical: A0A3B6HY18 (Residues: 1-98; Coverage: 100%)
Pfam: S25 ribosomal protein
40S ribosomal protein S25 in PDB entry 8jiw, assembly 1, front view.
40S ribosomal protein S25 in PDB entry 8jiw, assembly 1, side view.
40S ribosomal protein S25 in PDB entry 8jiw, assembly 1, top view.
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RNA chain Ad
Name: 18S Ribosomal RNA
Representative chains: Ad
Length: 1811 nucleotides
Theoretical weight: 584.38 KDa
Rfam: Eukaryotic small subunit ribosomal RNA
18S Ribosomal RNA in PDB entry 8jiw, assembly 1, front view.
18S Ribosomal RNA in PDB entry 8jiw, assembly 1, side view.
18S Ribosomal RNA in PDB entry 8jiw, assembly 1, top view.
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