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Cryo-EM Structure of T. kodakarensis 70S ribosome

Electron Microscopy
2.55Å resolution
PDB entry 6th6 coloured by chain, front view.
PDB entry 6th6 coloured by chain, side view.
PDB entry 6th6 coloured by chain, top view.
Source organism: Thermococcus kodakarensis KOD1
Assembly composition:
hetero 63-mer (preferred)
Entry contents: 58 distinct polypeptide molecules
3 distinct RNA molecules

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Assemblies

Assembly 1 (preferred)
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Multimeric state: hetero 63-mer
Accessible surface area: 841865.95 Å2
Buried surface area: 387888.38 Å2
Dissociation area: 564.59 Å2
Dissociation energy (ΔGdiss): -0.72 kcal/mol
Dissociation entropy (TΔSdiss): 12.55 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-250348

Macromolecules

Small ribosomal subunit protein uS2
Chain: Ab
Length: 201 amino acids
Theoretical weight: 23.04 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JJD2 (Residues: 1-201; Coverage: 100%)
Gene names: TK1496, rps2
Pfam: Ribosomal protein S2
InterPro:
Small ribosomal subunit protein uS2 in PDB entry 6th6, assembly 1, front view.
Small ribosomal subunit protein uS2 in PDB entry 6th6, assembly 1, side view.
Small ribosomal subunit protein uS2 in PDB entry 6th6, assembly 1, top view.
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Small ribosomal subunit protein uS3
Chain: Ac
Length: 209 amino acids
Theoretical weight: 23.39 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JDH5 (Residues: 1-209; Coverage: 100%)
Gene names: TK1536, rps3
Pfam:
InterPro:
Small ribosomal subunit protein uS3 in PDB entry 6th6, assembly 1, front view.
Small ribosomal subunit protein uS3 in PDB entry 6th6, assembly 1, side view.
Small ribosomal subunit protein uS3 in PDB entry 6th6, assembly 1, top view.
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Small ribosomal subunit protein eS1
Chain: Ad
Length: 200 amino acids
Theoretical weight: 23.06 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JGM4 (Residues: 1-200; Coverage: 100%)
Gene names: TK1254, rps3ae
Pfam: Ribosomal S3Ae family
InterPro:
Small ribosomal subunit protein eS1 in PDB entry 6th6, assembly 1, front view.
Small ribosomal subunit protein eS1 in PDB entry 6th6, assembly 1, side view.
Small ribosomal subunit protein eS1 in PDB entry 6th6, assembly 1, top view.
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Small ribosomal subunit protein uS4
Chain: Ae
Length: 180 amino acids
Theoretical weight: 21.24 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JJF2 (Residues: 1-180; Coverage: 100%)
Gene names: TK1505, rps4
Pfam:
InterPro:
Small ribosomal subunit protein uS4 in PDB entry 6th6, assembly 1, front view.
Small ribosomal subunit protein uS4 in PDB entry 6th6, assembly 1, side view.
Small ribosomal subunit protein uS4 in PDB entry 6th6, assembly 1, top view.
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Small ribosomal subunit protein eS4
Chain: Af
Length: 243 amino acids
Theoretical weight: 27.82 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JJG0 (Residues: 1-243; Coverage: 100%)
Gene names: TK1529, rps4e
Pfam:
InterPro:
Small ribosomal subunit protein eS4 in PDB entry 6th6, assembly 1, front view.
Small ribosomal subunit protein eS4 in PDB entry 6th6, assembly 1, side view.
Small ribosomal subunit protein eS4 in PDB entry 6th6, assembly 1, top view.
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Small ribosomal subunit protein uS5
Chain: Ag
Length: 235 amino acids
Theoretical weight: 26.37 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JJG8 (Residues: 1-235; Coverage: 100%)
Gene names: TK1521, rps5
Pfam:
InterPro:
Small ribosomal subunit protein uS5 in PDB entry 6th6, assembly 1, front view.
Small ribosomal subunit protein uS5 in PDB entry 6th6, assembly 1, side view.
Small ribosomal subunit protein uS5 in PDB entry 6th6, assembly 1, top view.
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Small ribosomal subunit protein eS6
Chain: Ah
Length: 125 amino acids
Theoretical weight: 13.76 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JDK8 (Residues: 1-125; Coverage: 100%)
Gene names: TK1951, rps6e
Pfam: Ribosomal protein S6e
InterPro:
Small ribosomal subunit protein eS6 in PDB entry 6th6, assembly 1, front view.
Small ribosomal subunit protein eS6 in PDB entry 6th6, assembly 1, side view.
Small ribosomal subunit protein eS6 in PDB entry 6th6, assembly 1, top view.
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Small ribosomal subunit protein uS7
Chain: Ai
Length: 215 amino acids
Theoretical weight: 24.57 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JE04 (Residues: 1-215; Coverage: 100%)
Gene names: TK1077, rps7
Pfam: Ribosomal protein S7p/S5e
InterPro:
Small ribosomal subunit protein uS7 in PDB entry 6th6, assembly 1, front view.
Small ribosomal subunit protein uS7 in PDB entry 6th6, assembly 1, side view.
Small ribosomal subunit protein uS7 in PDB entry 6th6, assembly 1, top view.
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Small ribosomal subunit protein uS8
Chain: Aj
Length: 130 amino acids
Theoretical weight: 14.6 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JJG3 (Residues: 1-130; Coverage: 100%)
Gene names: TK1526, rps8
Pfam: Ribosomal protein S8
InterPro:
Small ribosomal subunit protein uS8 in PDB entry 6th6, assembly 1, front view.
Small ribosomal subunit protein uS8 in PDB entry 6th6, assembly 1, side view.
Small ribosomal subunit protein uS8 in PDB entry 6th6, assembly 1, top view.
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Small ribosomal subunit protein eS8
Chain: Ak
Length: 130 amino acids
Theoretical weight: 14.55 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JGF3 (Residues: 1-130; Coverage: 100%)
Gene names: TK1191, rps8e
Pfam: Ribosomal protein S8e
InterPro:
Small ribosomal subunit protein eS8 in PDB entry 6th6, assembly 1, front view.
Small ribosomal subunit protein eS8 in PDB entry 6th6, assembly 1, side view.
Small ribosomal subunit protein eS8 in PDB entry 6th6, assembly 1, top view.
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Small ribosomal subunit protein uS9
Chain: Al
Length: 135 amino acids
Theoretical weight: 15.36 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JJE2 (Residues: 1-135; Coverage: 100%)
Gene names: TK1500, rps9
Pfam: Ribosomal protein S9/S16
InterPro:
Small ribosomal subunit protein uS9 in PDB entry 6th6, assembly 1, front view.
Small ribosomal subunit protein uS9 in PDB entry 6th6, assembly 1, side view.
Small ribosomal subunit protein uS9 in PDB entry 6th6, assembly 1, top view.
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Small ribosomal subunit protein uS10
Chain: Am
Length: 102 amino acids
Theoretical weight: 11.72 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JFZ5 (Residues: 1-102; Coverage: 100%)
Gene names: TK0307, rps10
Pfam: Ribosomal protein S10p/S20e
InterPro:
Small ribosomal subunit protein uS10 in PDB entry 6th6, assembly 1, front view.
Small ribosomal subunit protein uS10 in PDB entry 6th6, assembly 1, side view.
Small ribosomal subunit protein uS10 in PDB entry 6th6, assembly 1, top view.
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Small ribosomal subunit protein uS11
Chain: An
Length: 140 amino acids
Theoretical weight: 15.11 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JJF3 (Residues: 1-140; Coverage: 100%)
Gene names: TK1504, rps11
Pfam: Ribosomal protein S11
InterPro:
Small ribosomal subunit protein uS11 in PDB entry 6th6, assembly 1, front view.
Small ribosomal subunit protein uS11 in PDB entry 6th6, assembly 1, side view.
Small ribosomal subunit protein uS11 in PDB entry 6th6, assembly 1, top view.
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Small ribosomal subunit protein uS12
Chain: Ao
Length: 147 amino acids
Theoretical weight: 16.49 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JE20 (Residues: 1-147; Coverage: 100%)
Gene names: TK1078, rps12
Pfam: Ribosomal protein S12/S23
InterPro:
Small ribosomal subunit protein uS12 in PDB entry 6th6, assembly 1, front view.
Small ribosomal subunit protein uS12 in PDB entry 6th6, assembly 1, side view.
Small ribosomal subunit protein uS12 in PDB entry 6th6, assembly 1, top view.
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Small ribosomal subunit protein uS13
Chain: Ap
Length: 149 amino acids
Theoretical weight: 17.03 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JJF1 (Residues: 1-149; Coverage: 100%)
Gene names: TK1506, rps13
Pfam: Ribosomal protein S13/S18
InterPro:
Small ribosomal subunit protein uS13 in PDB entry 6th6, assembly 1, front view.
Small ribosomal subunit protein uS13 in PDB entry 6th6, assembly 1, side view.
Small ribosomal subunit protein uS13 in PDB entry 6th6, assembly 1, top view.
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Small ribosomal subunit protein uS15
Chain: Aq
Length: 151 amino acids
Theoretical weight: 17.58 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JGJ4 (Residues: 1-151; Coverage: 100%)
Gene names: TK1251, rps15
Pfam:
InterPro:
Small ribosomal subunit protein uS15 in PDB entry 6th6, assembly 1, front view.
Small ribosomal subunit protein uS15 in PDB entry 6th6, assembly 1, side view.
Small ribosomal subunit protein uS15 in PDB entry 6th6, assembly 1, top view.
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Small ribosomal subunit protein uS14
Chain: Ar
Length: 56 amino acids
Theoretical weight: 6.63 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JJG2 (Residues: 1-56; Coverage: 100%)
Gene names: TK1527, rps14
Pfam: Ribosomal protein S14p/S29e
InterPro:
Small ribosomal subunit protein uS14 in PDB entry 6th6, assembly 1, front view.
Small ribosomal subunit protein uS14 in PDB entry 6th6, assembly 1, side view.
Small ribosomal subunit protein uS14 in PDB entry 6th6, assembly 1, top view.
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Small ribosomal subunit protein uS17
Chain: As
Length: 114 amino acids
Theoretical weight: 13.22 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JDH9 (Residues: 1-114; Coverage: 100%)
Gene names: TK1532, rps17
Pfam: Ribosomal protein S17
InterPro:
Small ribosomal subunit protein uS17 in PDB entry 6th6, assembly 1, front view.
Small ribosomal subunit protein uS17 in PDB entry 6th6, assembly 1, side view.
Small ribosomal subunit protein uS17 in PDB entry 6th6, assembly 1, top view.
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Small ribosomal subunit protein eS17
Chain: At
Length: 67 amino acids
Theoretical weight: 8.04 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JDC7 (Residues: 1-67; Coverage: 100%)
Gene names: TK2292, rps17e
Pfam: Ribosomal S17
InterPro:
Small ribosomal subunit protein eS17 in PDB entry 6th6, assembly 1, front view.
Small ribosomal subunit protein eS17 in PDB entry 6th6, assembly 1, side view.
Small ribosomal subunit protein eS17 in PDB entry 6th6, assembly 1, top view.
Molecule details ›

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Small ribosomal subunit protein uS19
Chain: Au
Length: 133 amino acids
Theoretical weight: 15.45 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JDH3 (Residues: 1-133; Coverage: 100%)
Gene names: TK1538, rps19
Pfam: Ribosomal protein S19
InterPro:
Small ribosomal subunit protein uS19 in PDB entry 6th6, assembly 1, front view.
Small ribosomal subunit protein uS19 in PDB entry 6th6, assembly 1, side view.
Small ribosomal subunit protein uS19 in PDB entry 6th6, assembly 1, top view.
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Small ribosomal subunit protein eS19
Chain: Av
Length: 150 amino acids
Theoretical weight: 17.3 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JGN5 (Residues: 1-150; Coverage: 100%)
Gene names: TK1276, rps19e
Pfam: Ribosomal protein S19e
InterPro:
Small ribosomal subunit protein eS19 in PDB entry 6th6, assembly 1, front view.
Small ribosomal subunit protein eS19 in PDB entry 6th6, assembly 1, side view.
Small ribosomal subunit protein eS19 in PDB entry 6th6, assembly 1, top view.
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Small ribosomal subunit protein eS24
Chain: Aw
Length: 98 amino acids
Theoretical weight: 11.46 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JIY8 (Residues: 1-98; Coverage: 100%)
Gene names: TK1696, rps24e
Pfam: Ribosomal protein S24e
InterPro:
Small ribosomal subunit protein eS24 in PDB entry 6th6, assembly 1, front view.
Small ribosomal subunit protein eS24 in PDB entry 6th6, assembly 1, side view.
Small ribosomal subunit protein eS24 in PDB entry 6th6, assembly 1, top view.
Molecule details ›

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Small ribosomal subunit protein eS27
Chain: Ax
Length: 65 amino acids
Theoretical weight: 7.07 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JE50 (Residues: 1-65; Coverage: 100%)
Gene names: TK1099, rps27e
Pfam: Ribosomal protein S27
InterPro:
Small ribosomal subunit protein eS27 in PDB entry 6th6, assembly 1, front view.
Small ribosomal subunit protein eS27 in PDB entry 6th6, assembly 1, side view.
Small ribosomal subunit protein eS27 in PDB entry 6th6, assembly 1, top view.
Molecule details ›

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Small ribosomal subunit protein eS28
Chain: Ay
Length: 70 amino acids
Theoretical weight: 7.97 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JGR4 (Residues: 1-70; Coverage: 100%)
Gene names: TK1310, rps28e
Pfam: Ribosomal protein S28e
InterPro:
Small ribosomal subunit protein eS28 in PDB entry 6th6, assembly 1, front view.
Small ribosomal subunit protein eS28 in PDB entry 6th6, assembly 1, side view.
Small ribosomal subunit protein eS28 in PDB entry 6th6, assembly 1, top view.
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Small zinc finger protein HVO-2753-like zinc-binding pocket domain-containing protein
Chain: Az
Length: 62 amino acids
Theoretical weight: 7 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JFE2 (Residues: 1-62; Coverage: 100%)
Gene name: TK0111
Pfam: Small zinc finger protein HVO_2753-like, Zn-binding pocket
InterPro:
Small zinc finger protein HVO-2753-like zinc-binding pocket domain-containing protein in PDB entry 6th6, assembly 1, front view.
Small zinc finger protein HVO-2753-like zinc-binding pocket domain-containing protein in PDB entry 6th6, assembly 1, side view.
Small zinc finger protein HVO-2753-like zinc-binding pocket domain-containing protein in PDB entry 6th6, assembly 1, top view.
Molecule details ›

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Large ribosomal subunit protein uL2
Chain: BC
Length: 239 amino acids
Theoretical weight: 26.09 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JDH2 (Residues: 1-239; Coverage: 100%)
Gene names: TK1539, rpl2
Pfam:
InterPro:
Large ribosomal subunit protein uL2 in PDB entry 6th6, assembly 1, front view.
Large ribosomal subunit protein uL2 in PDB entry 6th6, assembly 1, side view.
Large ribosomal subunit protein uL2 in PDB entry 6th6, assembly 1, top view.
Molecule details ›

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Large ribosomal subunit protein uL3
Chain: BD
Length: 346 amino acids
Theoretical weight: 39.12 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JDJ0 (Residues: 1-346; Coverage: 100%)
Gene names: TK1542, rpl3
Pfam: Ribosomal protein L3
InterPro:
Large ribosomal subunit protein uL3 in PDB entry 6th6, assembly 1, front view.
Large ribosomal subunit protein uL3 in PDB entry 6th6, assembly 1, side view.
Large ribosomal subunit protein uL3 in PDB entry 6th6, assembly 1, top view.
Molecule details ›

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Large ribosomal subunit protein uL4
Chain: BE
Length: 255 amino acids
Theoretical weight: 28.77 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JDI0 (Residues: 1-255; Coverage: 100%)
Gene names: TK1541, rpl4
Pfam: Ribosomal protein L4/L1 family
InterPro:
Large ribosomal subunit protein uL4 in PDB entry 6th6, assembly 1, front view.
Large ribosomal subunit protein uL4 in PDB entry 6th6, assembly 1, side view.
Large ribosomal subunit protein uL4 in PDB entry 6th6, assembly 1, top view.
Molecule details ›

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Large ribosomal subunit protein uL5
Chain: BF
Length: 183 amino acids
Theoretical weight: 21.03 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JJG1 (Residues: 1-183; Coverage: 100%)
Gene names: TK1528, rpl5
Pfam:
InterPro:
Large ribosomal subunit protein uL5 in PDB entry 6th6, assembly 1, front view.
Large ribosomal subunit protein uL5 in PDB entry 6th6, assembly 1, side view.
Large ribosomal subunit protein uL5 in PDB entry 6th6, assembly 1, top view.
Molecule details ›

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Large ribosomal subunit protein uL6
Chain: BG
Length: 184 amino acids
Theoretical weight: 20.89 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JJG4 (Residues: 1-184; Coverage: 100%)
Gene names: TK1525, rpl6
Pfam: Ribosomal protein L6
InterPro:
Large ribosomal subunit protein uL6 in PDB entry 6th6, assembly 1, front view.
Large ribosomal subunit protein uL6 in PDB entry 6th6, assembly 1, side view.
Large ribosomal subunit protein uL6 in PDB entry 6th6, assembly 1, top view.
Molecule details ›

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Large ribosomal subunit protein eL8
Chains: BH, BI
Length: 123 amino acids
Theoretical weight: 13.45 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JGR3 (Residues: 1-123; Coverage: 100%)
Gene names: TK1311, rpl7ae
Pfam: Ribosomal protein L7Ae/L30e/S12e/Gadd45 family
InterPro:
Large ribosomal subunit protein eL8 in PDB entry 6th6, assembly 1, front view.
Large ribosomal subunit protein eL8 in PDB entry 6th6, assembly 1, side view.
Large ribosomal subunit protein eL8 in PDB entry 6th6, assembly 1, top view.
Molecule details ›

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Large ribosomal subunit protein uL16
Chain: BJ
Length: 182 amino acids
Theoretical weight: 21.12 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JDI6 (Residues: 1-182; Coverage: 100%)
Gene names: TK1546, rpl10e
Pfam: Ribosomal protein L16p/L10e
InterPro:
Large ribosomal subunit protein uL16 in PDB entry 6th6, assembly 1, front view.
Large ribosomal subunit protein uL16 in PDB entry 6th6, assembly 1, side view.
Large ribosomal subunit protein uL16 in PDB entry 6th6, assembly 1, top view.
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Large ribosomal subunit protein uL13
Chain: BK
Length: 142 amino acids
Theoretical weight: 16.32 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JJF6 (Residues: 1-142; Coverage: 100%)
Gene names: TK1501, rpl13
Pfam: Ribosomal protein L13
InterPro:
Large ribosomal subunit protein uL13 in PDB entry 6th6, assembly 1, front view.
Large ribosomal subunit protein uL13 in PDB entry 6th6, assembly 1, side view.
Large ribosomal subunit protein uL13 in PDB entry 6th6, assembly 1, top view.
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Large ribosomal subunit protein uL14
Chain: BL
Length: 141 amino acids
Theoretical weight: 15.18 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JJF8 (Residues: 1-141; Coverage: 100%)
Gene names: TK1531, rpl14
Pfam: Ribosomal protein L14p/L23e
InterPro:
Large ribosomal subunit protein uL14 in PDB entry 6th6, assembly 1, front view.
Large ribosomal subunit protein uL14 in PDB entry 6th6, assembly 1, side view.
Large ribosomal subunit protein uL14 in PDB entry 6th6, assembly 1, top view.
Molecule details ›

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Large ribosomal subunit protein eL14
Chains: BM, BN
Length: 83 amino acids
Theoretical weight: 8.97 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JJE4 (Residues: 1-83; Coverage: 100%)
Gene names: TK1513, rpl14e
InterPro:
Large ribosomal subunit protein eL14 in PDB entry 6th6, assembly 1, front view.
Large ribosomal subunit protein eL14 in PDB entry 6th6, assembly 1, side view.
Large ribosomal subunit protein eL14 in PDB entry 6th6, assembly 1, top view.
Molecule details ›

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Large ribosomal subunit protein uL15
Chain: BO
Length: 148 amino acids
Theoretical weight: 16.57 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JJH0 (Residues: 1-148; Coverage: 100%)
Gene names: TK1519, rpl15
Pfam: Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27A
InterPro:
Large ribosomal subunit protein uL15 in PDB entry 6th6, assembly 1, front view.
Large ribosomal subunit protein uL15 in PDB entry 6th6, assembly 1, side view.
Large ribosomal subunit protein uL15 in PDB entry 6th6, assembly 1, top view.
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Large ribosomal subunit protein eL15
Chain: BP
Length: 194 amino acids
Theoretical weight: 22.61 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JH43 (Residues: 1-194; Coverage: 100%)
Gene names: TK1454, rpl15e
Pfam: Ribosomal L15
InterPro:
Large ribosomal subunit protein eL15 in PDB entry 6th6, assembly 1, front view.
Large ribosomal subunit protein eL15 in PDB entry 6th6, assembly 1, side view.
Large ribosomal subunit protein eL15 in PDB entry 6th6, assembly 1, top view.
Molecule details ›

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Large ribosomal subunit protein uL18
Chain: BQ
Length: 201 amino acids
Theoretical weight: 22.9 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JJG7 (Residues: 1-201; Coverage: 100%)
Gene names: TK1522, rpl18
Pfam: Ribosomal large subunit proteins 60S L5, and 50S L18
InterPro: Large ribosomal subunit protein uL18 eukaryotic/archaeal
Large ribosomal subunit protein uL18 in PDB entry 6th6, assembly 1, front view.
Large ribosomal subunit protein uL18 in PDB entry 6th6, assembly 1, side view.
Large ribosomal subunit protein uL18 in PDB entry 6th6, assembly 1, top view.
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Large ribosomal subunit protein eL18
Chain: BR
Length: 121 amino acids
Theoretical weight: 13.8 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JJF5 (Residues: 1-121; Coverage: 100%)
Gene names: TK1502, rpl18e
Pfam: Ribosomal protein 60S L18 and 50S L18e
InterPro:
Large ribosomal subunit protein eL18 in PDB entry 6th6, assembly 1, front view.
Large ribosomal subunit protein eL18 in PDB entry 6th6, assembly 1, side view.
Large ribosomal subunit protein eL18 in PDB entry 6th6, assembly 1, top view.
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Large ribosomal subunit protein eL19
Chain: BS
Length: 150 amino acids
Theoretical weight: 17.67 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JJG6 (Residues: 1-150; Coverage: 100%)
Gene names: TK1523, rpl19e
Pfam: Ribosomal protein L19e
InterPro:
Large ribosomal subunit protein eL19 in PDB entry 6th6, assembly 1, front view.
Large ribosomal subunit protein eL19 in PDB entry 6th6, assembly 1, side view.
Large ribosomal subunit protein eL19 in PDB entry 6th6, assembly 1, top view.
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Large ribosomal subunit protein eL20
Chain: BT
Length: 77 amino acids
Theoretical weight: 9.23 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JGT3 (Residues: 1-77; Coverage: 100%)
Gene names: TK1322, rpl18a, rpl20e, rplX
Pfam: Ribosomal proteins 50S-L18Ae/60S-L20/60S-L18A
InterPro:
Large ribosomal subunit protein eL20 in PDB entry 6th6, assembly 1, front view.
Large ribosomal subunit protein eL20 in PDB entry 6th6, assembly 1, side view.
Large ribosomal subunit protein eL20 in PDB entry 6th6, assembly 1, top view.
Molecule details ›

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Large ribosomal subunit protein eL21
Chain: BU
Length: 98 amino acids
Theoretical weight: 11.29 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JI51 (Residues: 1-98; Coverage: 100%)
Gene names: TK0902, rpl21e
Pfam: Ribosomal protein L21e
InterPro:
Large ribosomal subunit protein eL21 in PDB entry 6th6, assembly 1, front view.
Large ribosomal subunit protein eL21 in PDB entry 6th6, assembly 1, side view.
Large ribosomal subunit protein eL21 in PDB entry 6th6, assembly 1, top view.
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Large ribosomal subunit protein uL22
Chain: BV
Length: 156 amino acids
Theoretical weight: 17.84 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JDH4 (Residues: 1-156; Coverage: 100%)
Gene names: TK1537, rpl22
Pfam: Ribosomal protein L22p/L17e
InterPro:
Large ribosomal subunit protein uL22 in PDB entry 6th6, assembly 1, front view.
Large ribosomal subunit protein uL22 in PDB entry 6th6, assembly 1, side view.
Large ribosomal subunit protein uL22 in PDB entry 6th6, assembly 1, top view.
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Large ribosomal subunit protein uL23
Chain: BW
Length: 86 amino acids
Theoretical weight: 9.92 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JDH1 (Residues: 1-86; Coverage: 100%)
Gene names: TK1540, rpl23
Pfam: Ribosomal protein L23
InterPro:
Large ribosomal subunit protein uL23 in PDB entry 6th6, assembly 1, front view.
Large ribosomal subunit protein uL23 in PDB entry 6th6, assembly 1, side view.
Large ribosomal subunit protein uL23 in PDB entry 6th6, assembly 1, top view.
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Large ribosomal subunit protein uL24
Chain: BX
Length: 121 amino acids
Theoretical weight: 14.23 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JJF9 (Residues: 1-121; Coverage: 100%)
Gene names: TK1530, rpl24
Pfam:
InterPro:
Large ribosomal subunit protein uL24 in PDB entry 6th6, assembly 1, front view.
Large ribosomal subunit protein uL24 in PDB entry 6th6, assembly 1, side view.
Large ribosomal subunit protein uL24 in PDB entry 6th6, assembly 1, top view.
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Large ribosomal subunit protein eL24
Chain: BY
Length: 67 amino acids
Theoretical weight: 8.11 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JGR5 (Residues: 1-67; Coverage: 100%)
Gene names: TK1309, rpl24e
Pfam: Ribosomal protein L24e
InterPro:
Large ribosomal subunit protein eL24 in PDB entry 6th6, assembly 1, front view.
Large ribosomal subunit protein eL24 in PDB entry 6th6, assembly 1, side view.
Large ribosomal subunit protein eL24 in PDB entry 6th6, assembly 1, top view.
Molecule details ›

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Large ribosomal subunit protein uL29
Chain: BZ
Length: 66 amino acids
Theoretical weight: 7.94 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JDH6 (Residues: 1-66; Coverage: 100%)
Gene names: TK1535, rpl29
Pfam: Ribosomal L29 protein
InterPro:
Large ribosomal subunit protein uL29 in PDB entry 6th6, assembly 1, front view.
Large ribosomal subunit protein uL29 in PDB entry 6th6, assembly 1, side view.
Large ribosomal subunit protein uL29 in PDB entry 6th6, assembly 1, top view.
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Large ribosomal subunit protein uL30
Chain: Ba
Length: 155 amino acids
Theoretical weight: 17.86 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JJG9 (Residues: 1-155; Coverage: 100%)
Gene names: TK1520, rpl30
Pfam: Ribosomal protein L30p/L7e
InterPro:
Large ribosomal subunit protein uL30 in PDB entry 6th6, assembly 1, front view.
Large ribosomal subunit protein uL30 in PDB entry 6th6, assembly 1, side view.
Large ribosomal subunit protein uL30 in PDB entry 6th6, assembly 1, top view.
Molecule details ›

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Large ribosomal subunit protein eL30
Chain: Bb
Length: 102 amino acids
Theoretical weight: 10.97 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JE35 (Residues: 1-102; Coverage: 100%)
Gene names: TK1080, rpl30e
Pfam: Ribosomal protein L7Ae/L30e/S12e/Gadd45 family
InterPro:
Large ribosomal subunit protein eL30 in PDB entry 6th6, assembly 1, front view.
Large ribosomal subunit protein eL30 in PDB entry 6th6, assembly 1, side view.
Large ribosomal subunit protein eL30 in PDB entry 6th6, assembly 1, top view.
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Large ribosomal subunit protein eL31
Chain: Bc
Length: 90 amino acids
Theoretical weight: 10.35 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JGT5 (Residues: 1-90; Coverage: 100%)
Gene names: TK1320, rpl31e
Pfam: Ribosomal protein L31e
InterPro:
Large ribosomal subunit protein eL31 in PDB entry 6th6, assembly 1, front view.
Large ribosomal subunit protein eL31 in PDB entry 6th6, assembly 1, side view.
Large ribosomal subunit protein eL31 in PDB entry 6th6, assembly 1, top view.
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Large ribosomal subunit protein eL32
Chain: Bd
Length: 125 amino acids
Theoretical weight: 14.65 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JJG5 (Residues: 1-125; Coverage: 99%)
Gene names: TK1524, rpl32e
Pfam: Ribosomal protein L32
InterPro:
Large ribosomal subunit protein eL32 in PDB entry 6th6, assembly 1, front view.
Large ribosomal subunit protein eL32 in PDB entry 6th6, assembly 1, side view.
Large ribosomal subunit protein eL32 in PDB entry 6th6, assembly 1, top view.
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Large ribosomal subunit protein eL34
Chain: Be
Length: 90 amino acids
Theoretical weight: 10.56 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JJF7 (Residues: 1-90; Coverage: 100%)
Gene names: TK1515, rpl34e
Pfam: Ribosomal protein L34e
InterPro:
Large ribosomal subunit protein eL34 in PDB entry 6th6, assembly 1, front view.
Large ribosomal subunit protein eL34 in PDB entry 6th6, assembly 1, side view.
Large ribosomal subunit protein eL34 in PDB entry 6th6, assembly 1, top view.
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Large ribosomal subunit protein eL43
Chain: Bg
Length: 86 amino acids
Theoretical weight: 9.24 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JDM6 (Residues: 1-86; Coverage: 100%)
Gene names: TK0615, rpl37ae
Pfam: Ribosomal L37ae protein family
InterPro:
Large ribosomal subunit protein eL43 in PDB entry 6th6, assembly 1, front view.
Large ribosomal subunit protein eL43 in PDB entry 6th6, assembly 1, side view.
Large ribosomal subunit protein eL43 in PDB entry 6th6, assembly 1, top view.
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Large ribosomal subunit protein eL37
Chain: Bh
Length: 63 amino acids
Theoretical weight: 7.47 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JIE1 (Residues: 1-63; Coverage: 100%)
Gene names: TK0975, rpl37e
Pfam: Ribosomal protein L37e
InterPro:
Large ribosomal subunit protein eL37 in PDB entry 6th6, assembly 1, front view.
Large ribosomal subunit protein eL37 in PDB entry 6th6, assembly 1, side view.
Large ribosomal subunit protein eL37 in PDB entry 6th6, assembly 1, top view.
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Large ribosomal subunit protein eL39
Chain: Bi
Length: 51 amino acids
Theoretical weight: 6.26 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JGT6 (Residues: 1-51; Coverage: 100%)
Gene names: TK1319, rpl39e
Pfam: Ribosomal L39 protein
InterPro:
Large ribosomal subunit protein eL39 in PDB entry 6th6, assembly 1, front view.
Large ribosomal subunit protein eL39 in PDB entry 6th6, assembly 1, side view.
Large ribosomal subunit protein eL39 in PDB entry 6th6, assembly 1, top view.
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Large ribosomal subunit protein eL40
Chain: Bj
Length: 51 amino acids
Theoretical weight: 5.78 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JJD3 (Residues: 1-51; Coverage: 100%)
Gene names: TK1495, rpl40e
InterPro:
Large ribosomal subunit protein eL40 in PDB entry 6th6, assembly 1, front view.
Large ribosomal subunit protein eL40 in PDB entry 6th6, assembly 1, side view.
Large ribosomal subunit protein eL40 in PDB entry 6th6, assembly 1, top view.
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LSU ribosomal protein L41E
Chain: Bk
Length: 37 amino acids
Theoretical weight: 5.05 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JEV0 (Residues: 1-37; Coverage: 100%)
Gene name: TK1915
LSU ribosomal protein L41E in PDB entry 6th6, assembly 1, front view.
LSU ribosomal protein L41E in PDB entry 6th6, assembly 1, side view.
LSU ribosomal protein L41E in PDB entry 6th6, assembly 1, top view.
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Large ribosomal subunit protein eL42
Chain: Bl
Length: 94 amino acids
Theoretical weight: 11.2 KDa
Source organism: Thermococcus kodakarensis KOD1
UniProt:
  • Canonical: Q5JE51 (Residues: 1-94; Coverage: 100%)
Gene names: TK1098, rpl44e
Pfam: Ribosomal protein L44
InterPro:
Large ribosomal subunit protein eL42 in PDB entry 6th6, assembly 1, front view.
Large ribosomal subunit protein eL42 in PDB entry 6th6, assembly 1, side view.
Large ribosomal subunit protein eL42 in PDB entry 6th6, assembly 1, top view.
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RNA chain Aa
Name: 16S ribosomal RNA
Representative chains: Aa
Length: 1498 nucleotides
Theoretical weight: 486.94 KDa
Rfam: Archaeal small subunit ribosomal RNA
16S ribosomal RNA in PDB entry 6th6, assembly 1, front view.
16S ribosomal RNA in PDB entry 6th6, assembly 1, side view.
16S ribosomal RNA in PDB entry 6th6, assembly 1, top view.
Molecule details ›

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RNA chain BA
Name: 23S ribosomal RNA
Representative chains: BA
Length: 3037 nucleotides
Theoretical weight: 987.67 KDa
Rfam: Archaeal large subunit ribosomal RNA
23S ribosomal RNA in PDB entry 6th6, assembly 1, front view.
23S ribosomal RNA in PDB entry 6th6, assembly 1, side view.
23S ribosomal RNA in PDB entry 6th6, assembly 1, top view.
Molecule details ›

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RNA chain BB
Name: 5S ribosomal RNA
Representative chains: BB
Length: 126 nucleotides
Theoretical weight: 40.74 KDa
Rfam: 5S ribosomal RNA
5S ribosomal RNA in PDB entry 6th6, assembly 1, front view.
5S ribosomal RNA in PDB entry 6th6, assembly 1, side view.
5S ribosomal RNA in PDB entry 6th6, assembly 1, top view.
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