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Bacillus subtilis ribosome quality control complex state B. Ribosomal 50S subunit with P-tRNA, RqcH, and RqcP/YabO

Electron Microscopy
2.9Å resolution
PDB entry 7as8 coloured by chain, front view.
PDB entry 7as8 coloured by chain, side view.
PDB entry 7as8 coloured by chain, top view.
Source organism: Bacillus subtilis subsp. subtilis str. 168
Assembly composition:
hetero 33-mer (preferred)
Entry contents: 30 distinct polypeptide molecules
3 distinct RNA molecules

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Assemblies

Assembly 1 (preferred)
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Multimeric state: hetero 33-mer
Accessible surface area: 501844.02 Å2
Buried surface area: 157566.93 Å2
Dissociation area: 1,108.09 Å2
Dissociation energy (ΔGdiss): 15.33 kcal/mol
Dissociation entropy (TΔSdiss): 11.94 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-128345

Macromolecules

Rqc2 homolog RqcH
Chain: 0
Length: 597 amino acids
Theoretical weight: 68.34 KDa
Source organism: Bacillus subtilis subsp. subtilis str. 168
Expression system: Bacillus subtilis subsp. subtilis str. 168
UniProt:
  • Canonical: O34693 (Residues: 1-570; Coverage: 100%)
Gene names: BSU15640, rqcH, yloA
Pfam:
InterPro:
Rqc2 homolog RqcH in PDB entry 7as8, assembly 1, front view.
Rqc2 homolog RqcH in PDB entry 7as8, assembly 1, side view.
Rqc2 homolog RqcH in PDB entry 7as8, assembly 1, top view.
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Uncharacterized protein YabO
Chain: 1
Length: 86 amino acids
Theoretical weight: 9.74 KDa
Source organism: Bacillus subtilis subsp. subtilis str. 168
UniProt:
  • Canonical: P37557 (Residues: 1-86; Coverage: 100%)
Gene names: BSU00590, yabO
Pfam: S4 domain
InterPro:
Uncharacterized protein YabO in PDB entry 7as8, assembly 1, front view.
Uncharacterized protein YabO in PDB entry 7as8, assembly 1, side view.
Uncharacterized protein YabO in PDB entry 7as8, assembly 1, top view.
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Large ribosomal subunit protein uL2
Chain: E
Length: 277 amino acids
Theoretical weight: 30.34 KDa
Source organism: Bacillus subtilis subsp. subtilis str. 168
UniProt:
  • Canonical: P42919 (Residues: 1-277; Coverage: 100%)
Gene names: BSU01190, rplB
Pfam:
InterPro:
Large ribosomal subunit protein uL2 in PDB entry 7as8, assembly 1, front view.
Large ribosomal subunit protein uL2 in PDB entry 7as8, assembly 1, side view.
Large ribosomal subunit protein uL2 in PDB entry 7as8, assembly 1, top view.
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Large ribosomal subunit protein uL3
Chain: F
Length: 209 amino acids
Theoretical weight: 22.72 KDa
Source organism: Bacillus subtilis subsp. subtilis str. 168
UniProt:
  • Canonical: P42920 (Residues: 1-209; Coverage: 100%)
Gene names: BSU01160, rplC
Pfam: Ribosomal protein L3
InterPro:
Large ribosomal subunit protein uL3 in PDB entry 7as8, assembly 1, front view.
Large ribosomal subunit protein uL3 in PDB entry 7as8, assembly 1, side view.
Large ribosomal subunit protein uL3 in PDB entry 7as8, assembly 1, top view.
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Large ribosomal subunit protein uL4
Chain: G
Length: 207 amino acids
Theoretical weight: 22.42 KDa
Source organism: Bacillus subtilis subsp. subtilis str. 168
UniProt:
  • Canonical: P42921 (Residues: 1-207; Coverage: 100%)
Gene names: BSU01170, rplD
Pfam: Ribosomal protein L4/L1 family
InterPro:
Large ribosomal subunit protein uL4 in PDB entry 7as8, assembly 1, front view.
Large ribosomal subunit protein uL4 in PDB entry 7as8, assembly 1, side view.
Large ribosomal subunit protein uL4 in PDB entry 7as8, assembly 1, top view.
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Large ribosomal subunit protein uL5
Chain: H
Length: 179 amino acids
Theoretical weight: 20.18 KDa
Source organism: Bacillus subtilis subsp. subtilis str. 168
UniProt:
  • Canonical: P12877 (Residues: 1-179; Coverage: 100%)
Gene names: BSU01280, rplE
Pfam:
InterPro:
Large ribosomal subunit protein uL5 in PDB entry 7as8, assembly 1, front view.
Large ribosomal subunit protein uL5 in PDB entry 7as8, assembly 1, side view.
Large ribosomal subunit protein uL5 in PDB entry 7as8, assembly 1, top view.
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Large ribosomal subunit protein uL6
Chain: I
Length: 179 amino acids
Theoretical weight: 19.54 KDa
Source organism: Bacillus subtilis subsp. subtilis str. 168
UniProt:
  • Canonical: P46898 (Residues: 1-179; Coverage: 100%)
Gene names: BSU01310, rplF
Pfam: Ribosomal protein L6
InterPro:
Large ribosomal subunit protein uL6 in PDB entry 7as8, assembly 1, front view.
Large ribosomal subunit protein uL6 in PDB entry 7as8, assembly 1, side view.
Large ribosomal subunit protein uL6 in PDB entry 7as8, assembly 1, top view.
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Large ribosomal subunit protein uL11
Chain: K
Length: 141 amino acids
Theoretical weight: 14.95 KDa
Source organism: Bacillus subtilis subsp. subtilis str. 168
UniProt:
  • Canonical: Q06796 (Residues: 1-141; Coverage: 100%)
Gene names: BSU01020, relC, rplK, tsp6
Pfam:
InterPro:
Large ribosomal subunit protein uL11 in PDB entry 7as8, assembly 1, front view.
Large ribosomal subunit protein uL11 in PDB entry 7as8, assembly 1, side view.
Large ribosomal subunit protein uL11 in PDB entry 7as8, assembly 1, top view.
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Large ribosomal subunit protein uL10
Chain: L
Length: 166 amino acids
Theoretical weight: 18.1 KDa
Source organism: Bacillus subtilis subsp. subtilis str. 168
UniProt:
  • Canonical: P42923 (Residues: 1-166; Coverage: 100%)
Gene names: BSU01040, rplJ
Pfam: Ribosomal protein L10
InterPro:
Large ribosomal subunit protein uL10 in PDB entry 7as8, assembly 1, front view.
Large ribosomal subunit protein uL10 in PDB entry 7as8, assembly 1, side view.
Large ribosomal subunit protein uL10 in PDB entry 7as8, assembly 1, top view.
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Large ribosomal subunit protein uL13
Chain: N
Length: 145 amino acids
Theoretical weight: 16.41 KDa
Source organism: Bacillus subtilis subsp. subtilis str. 168
UniProt:
  • Canonical: P70974 (Residues: 1-145; Coverage: 100%)
Gene names: BSU01490, rplM
Pfam: Ribosomal protein L13
InterPro:
Large ribosomal subunit protein uL13 in PDB entry 7as8, assembly 1, front view.
Large ribosomal subunit protein uL13 in PDB entry 7as8, assembly 1, side view.
Large ribosomal subunit protein uL13 in PDB entry 7as8, assembly 1, top view.
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Large ribosomal subunit protein uL14
Chain: O
Length: 122 amino acids
Theoretical weight: 13.18 KDa
Source organism: Bacillus subtilis subsp. subtilis str. 168
UniProt:
  • Canonical: P12875 (Residues: 1-122; Coverage: 100%)
Gene names: BSU01260, rplN
Pfam: Ribosomal protein L14p/L23e
InterPro:
Large ribosomal subunit protein uL14 in PDB entry 7as8, assembly 1, front view.
Large ribosomal subunit protein uL14 in PDB entry 7as8, assembly 1, side view.
Large ribosomal subunit protein uL14 in PDB entry 7as8, assembly 1, top view.
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Large ribosomal subunit protein uL15
Chain: P
Length: 146 amino acids
Theoretical weight: 15.41 KDa
Source organism: Bacillus subtilis subsp. subtilis str. 168
UniProt:
  • Canonical: P19946 (Residues: 1-146; Coverage: 100%)
Gene names: BSU01350, rplO
Pfam: Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27A
InterPro:
Large ribosomal subunit protein uL15 in PDB entry 7as8, assembly 1, front view.
Large ribosomal subunit protein uL15 in PDB entry 7as8, assembly 1, side view.
Large ribosomal subunit protein uL15 in PDB entry 7as8, assembly 1, top view.
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Large ribosomal subunit protein uL16
Chain: Q
Length: 144 amino acids
Theoretical weight: 16.22 KDa
Source organism: Bacillus subtilis subsp. subtilis str. 168
UniProt:
  • Canonical: P14577 (Residues: 1-144; Coverage: 100%)
Gene names: BSU01230, rplP
Pfam: Ribosomal protein L16p/L10e
InterPro:
Large ribosomal subunit protein uL16 in PDB entry 7as8, assembly 1, front view.
Large ribosomal subunit protein uL16 in PDB entry 7as8, assembly 1, side view.
Large ribosomal subunit protein uL16 in PDB entry 7as8, assembly 1, top view.
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Large ribosomal subunit protein bL17
Chain: R
Length: 120 amino acids
Theoretical weight: 13.77 KDa
Source organism: Bacillus subtilis subsp. subtilis str. 168
UniProt:
  • Canonical: P20277 (Residues: 1-120; Coverage: 100%)
Gene names: BSU01440, rplQ
Pfam: Ribosomal protein L17
InterPro:
Large ribosomal subunit protein bL17 in PDB entry 7as8, assembly 1, front view.
Large ribosomal subunit protein bL17 in PDB entry 7as8, assembly 1, side view.
Large ribosomal subunit protein bL17 in PDB entry 7as8, assembly 1, top view.
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Large ribosomal subunit protein uL18
Chain: S
Length: 120 amino acids
Theoretical weight: 12.99 KDa
Source organism: Bacillus subtilis subsp. subtilis str. 168
UniProt:
  • Canonical: P46899 (Residues: 1-120; Coverage: 100%)
Gene names: BSU01320, rplR
Pfam: Ribosomal L18 of archaea, bacteria, mitoch. and chloroplast
InterPro:
Large ribosomal subunit protein uL18 in PDB entry 7as8, assembly 1, front view.
Large ribosomal subunit protein uL18 in PDB entry 7as8, assembly 1, side view.
Large ribosomal subunit protein uL18 in PDB entry 7as8, assembly 1, top view.
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Large ribosomal subunit protein bL19
Chain: T
Length: 115 amino acids
Theoretical weight: 13.42 KDa
Source organism: Bacillus subtilis subsp. subtilis str. 168
UniProt:
  • Canonical: O31742 (Residues: 1-115; Coverage: 100%)
Gene names: BSU16040, rplS
Pfam: Ribosomal protein L19
InterPro:
Large ribosomal subunit protein bL19 in PDB entry 7as8, assembly 1, front view.
Large ribosomal subunit protein bL19 in PDB entry 7as8, assembly 1, side view.
Large ribosomal subunit protein bL19 in PDB entry 7as8, assembly 1, top view.
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Large ribosomal subunit protein bL20
Chain: U
Length: 119 amino acids
Theoretical weight: 13.67 KDa
Source organism: Bacillus subtilis subsp. subtilis str. 168
UniProt:
  • Canonical: P55873 (Residues: 1-119; Coverage: 100%)
Gene names: BSU28850, rplT
Pfam: Ribosomal protein L20
InterPro:
Large ribosomal subunit protein bL20 in PDB entry 7as8, assembly 1, front view.
Large ribosomal subunit protein bL20 in PDB entry 7as8, assembly 1, side view.
Large ribosomal subunit protein bL20 in PDB entry 7as8, assembly 1, top view.
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Large ribosomal subunit protein bL21
Chain: V
Length: 102 amino acids
Theoretical weight: 11.3 KDa
Source organism: Bacillus subtilis subsp. subtilis str. 168
UniProt:
  • Canonical: P26908 (Residues: 1-102; Coverage: 100%)
Gene names: BSU27960, rplU
Pfam: Ribosomal prokaryotic L21 protein
InterPro:
Large ribosomal subunit protein bL21 in PDB entry 7as8, assembly 1, front view.
Large ribosomal subunit protein bL21 in PDB entry 7as8, assembly 1, side view.
Large ribosomal subunit protein bL21 in PDB entry 7as8, assembly 1, top view.
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Large ribosomal subunit protein uL22
Chain: W
Length: 113 amino acids
Theoretical weight: 12.48 KDa
Source organism: Bacillus subtilis subsp. subtilis str. 168
UniProt:
  • Canonical: P42060 (Residues: 1-113; Coverage: 100%)
Gene names: BSU01210, rplV
Pfam: Ribosomal protein L22p/L17e
InterPro:
Large ribosomal subunit protein uL22 in PDB entry 7as8, assembly 1, front view.
Large ribosomal subunit protein uL22 in PDB entry 7as8, assembly 1, side view.
Large ribosomal subunit protein uL22 in PDB entry 7as8, assembly 1, top view.
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Large ribosomal subunit protein uL23
Chain: X
Length: 95 amino acids
Theoretical weight: 10.98 KDa
Source organism: Bacillus subtilis subsp. subtilis str. 168
UniProt:
  • Canonical: P42924 (Residues: 1-95; Coverage: 100%)
Gene names: BSU01180, rplW
Pfam: Ribosomal protein L23
InterPro:
Large ribosomal subunit protein uL23 in PDB entry 7as8, assembly 1, front view.
Large ribosomal subunit protein uL23 in PDB entry 7as8, assembly 1, side view.
Large ribosomal subunit protein uL23 in PDB entry 7as8, assembly 1, top view.
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Large ribosomal subunit protein uL24
Chain: Y
Length: 103 amino acids
Theoretical weight: 11.17 KDa
Source organism: Bacillus subtilis subsp. subtilis str. 168
UniProt:
  • Canonical: P0CI78 (Residues: 1-103; Coverage: 100%)
Gene names: BSU01270, rplX
Pfam:
InterPro:
Large ribosomal subunit protein uL24 in PDB entry 7as8, assembly 1, front view.
Large ribosomal subunit protein uL24 in PDB entry 7as8, assembly 1, side view.
Large ribosomal subunit protein uL24 in PDB entry 7as8, assembly 1, top view.
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Large ribosomal subunit protein bL27
Chain: a
Length: 94 amino acids
Theoretical weight: 10.39 KDa
Source organism: Bacillus subtilis subsp. subtilis str. 168
UniProt:
  • Canonical: P05657 (Residues: 1-94; Coverage: 100%)
Gene names: BSU27940, rpmA
Pfam: Ribosomal L27 protein
InterPro:
Large ribosomal subunit protein bL27 in PDB entry 7as8, assembly 1, front view.
Large ribosomal subunit protein bL27 in PDB entry 7as8, assembly 1, side view.
Large ribosomal subunit protein bL27 in PDB entry 7as8, assembly 1, top view.
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Large ribosomal subunit protein bL28
Chain: b
Length: 62 amino acids
Theoretical weight: 6.83 KDa
Source organism: Bacillus subtilis subsp. subtilis str. 168
UniProt:
  • Canonical: P37807 (Residues: 1-62; Coverage: 100%)
Gene names: BSU15820, rpmB, yloT
Pfam: Ribosomal L28 family
InterPro:
Large ribosomal subunit protein bL28 in PDB entry 7as8, assembly 1, front view.
Large ribosomal subunit protein bL28 in PDB entry 7as8, assembly 1, side view.
Large ribosomal subunit protein bL28 in PDB entry 7as8, assembly 1, top view.
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Large ribosomal subunit protein uL29
Chain: c
Length: 66 amino acids
Theoretical weight: 7.73 KDa
Source organism: Bacillus subtilis subsp. subtilis str. 168
UniProt:
  • Canonical: P12873 (Residues: 1-66; Coverage: 100%)
Gene names: BSU01240, rpmC
Pfam: Ribosomal L29 protein
InterPro:
Large ribosomal subunit protein uL29 in PDB entry 7as8, assembly 1, front view.
Large ribosomal subunit protein uL29 in PDB entry 7as8, assembly 1, side view.
Large ribosomal subunit protein uL29 in PDB entry 7as8, assembly 1, top view.
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Large ribosomal subunit protein uL30
Chain: d
Length: 59 amino acids
Theoretical weight: 6.65 KDa
Source organism: Bacillus subtilis subsp. subtilis str. 168
UniProt:
  • Canonical: P19947 (Residues: 1-59; Coverage: 100%)
Gene names: BSU01340, rpmD
Pfam: Ribosomal protein L30p/L7e
InterPro:
Large ribosomal subunit protein uL30 in PDB entry 7as8, assembly 1, front view.
Large ribosomal subunit protein uL30 in PDB entry 7as8, assembly 1, side view.
Large ribosomal subunit protein uL30 in PDB entry 7as8, assembly 1, top view.
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Large ribosomal subunit protein bL32
Chain: f
Length: 59 amino acids
Theoretical weight: 6.75 KDa
Source organism: Bacillus subtilis subsp. subtilis str. 168
UniProt:
  • Canonical: O34687 (Residues: 1-59; Coverage: 100%)
Gene names: BSU15080, rpmF
Pfam: Ribosomal L32p protein family
InterPro:
Large ribosomal subunit protein bL32 in PDB entry 7as8, assembly 1, front view.
Large ribosomal subunit protein bL32 in PDB entry 7as8, assembly 1, side view.
Large ribosomal subunit protein bL32 in PDB entry 7as8, assembly 1, top view.
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Large ribosomal subunit protein bL33A
Chain: g
Length: 49 amino acids
Theoretical weight: 5.92 KDa
Source organism: Bacillus subtilis subsp. subtilis str. 168
UniProt:
  • Canonical: P56849 (Residues: 1-49; Coverage: 100%)
Gene names: BSU24900, rpmG1, rpmGA
Pfam: Ribosomal protein L33
InterPro:
Large ribosomal subunit protein bL33A in PDB entry 7as8, assembly 1, front view.
Large ribosomal subunit protein bL33A in PDB entry 7as8, assembly 1, side view.
Large ribosomal subunit protein bL33A in PDB entry 7as8, assembly 1, top view.
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Large ribosomal subunit protein bL34
Chain: h
Length: 44 amino acids
Theoretical weight: 5.27 KDa
Source organism: Bacillus subtilis subsp. subtilis str. 168
UniProt:
  • Canonical: P05647 (Residues: 1-44; Coverage: 100%)
Gene names: BSU41060, rpmH
Pfam: Ribosomal protein L34
InterPro:
Large ribosomal subunit protein bL34 in PDB entry 7as8, assembly 1, front view.
Large ribosomal subunit protein bL34 in PDB entry 7as8, assembly 1, side view.
Large ribosomal subunit protein bL34 in PDB entry 7as8, assembly 1, top view.
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Large ribosomal subunit protein bL35
Chain: i
Length: 66 amino acids
Theoretical weight: 7.58 KDa
Source organism: Bacillus subtilis subsp. subtilis str. 168
UniProt:
  • Canonical: P55874 (Residues: 1-66; Coverage: 100%)
Gene names: BSU28860, rpmI
Pfam: Ribosomal protein L35
InterPro:
Large ribosomal subunit protein bL35 in PDB entry 7as8, assembly 1, front view.
Large ribosomal subunit protein bL35 in PDB entry 7as8, assembly 1, side view.
Large ribosomal subunit protein bL35 in PDB entry 7as8, assembly 1, top view.
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Large ribosomal subunit protein bL36
Chain: j
Length: 37 amino acids
Theoretical weight: 4.32 KDa
Source organism: Bacillus subtilis subsp. subtilis str. 168
UniProt:
  • Canonical: P20278 (Residues: 1-37; Coverage: 100%)
Gene names: BSU01400, rpmJ
Pfam: Ribosomal protein L36
InterPro:
Large ribosomal subunit protein bL36 in PDB entry 7as8, assembly 1, front view.
Large ribosomal subunit protein bL36 in PDB entry 7as8, assembly 1, side view.
Large ribosomal subunit protein bL36 in PDB entry 7as8, assembly 1, top view.
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RNA chain 2
Name: tRNA-Ala-1-1
Representative chains: 2
Length: 76 nucleotides
Theoretical weight: 24.49 KDa
Rfam: tRNA
tRNA-Ala-1-1 in PDB entry 7as8, assembly 1, front view.
tRNA-Ala-1-1 in PDB entry 7as8, assembly 1, side view.
tRNA-Ala-1-1 in PDB entry 7as8, assembly 1, top view.
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RNA chain A
Name: 23S ribosomal RNA
Representative chains: A
Length: 2926 nucleotides
Theoretical weight: 949.01 KDa
Rfam: Bacterial large subunit ribosomal RNA
23S ribosomal RNA in PDB entry 7as8, assembly 1, front view.
23S ribosomal RNA in PDB entry 7as8, assembly 1, side view.
23S ribosomal RNA in PDB entry 7as8, assembly 1, top view.
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RNA chain B
Name: 5s rRNA
Representative chains: B
Length: 119 nucleotides
Theoretical weight: 38.42 KDa
Rfam: 5S ribosomal RNA
5s rRNA in PDB entry 7as8, assembly 1, front view.
5s rRNA in PDB entry 7as8, assembly 1, side view.
5s rRNA in PDB entry 7as8, assembly 1, top view.
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