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Escherichia coli transcription-translation complex A2 (TTC-A2) containing a 15 nt long mRNA spacer, NusG, and fMet-tRNAs at P-site and E-site

Electron Microscopy
14Å resolution
PDB entry 6vyt coloured by chain, front view.
PDB entry 6vyt coloured by chain, side view.
PDB entry 6vyt coloured by chain, top view.
Source organism: Escherichia coli
Assembly composition:
hetero 64-mer (preferred)
Entry contents: 54 distinct polypeptide molecules
2 distinct DNA molecules
6 distinct RNA molecules

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Assemblies

Assembly 1 (preferred)
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Assembly Name: 30S small ribosomal subunit and RNA and DNA
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Multimeric state: hetero 64-mer
Accessible surface area: 950728.9 Å2
Buried surface area: 291051.89 Å2
Dissociation area: 3,780.69 Å2
Dissociation energy (ΔGdiss): -26.45 kcal/mol
Dissociation entropy (TΔSdiss): 67.15 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-238550

Macromolecules

Large ribosomal subunit protein bL21
Chain: 0
Length: 103 amino acids
Theoretical weight: 11.59 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0AG48 (Residues: 1-103; Coverage: 100%)
Gene names: JW3153, b3186, rplU
Pfam: Ribosomal prokaryotic L21 protein
InterPro:
Large ribosomal subunit protein bL21 in PDB entry 6vyt, assembly 1, front view.
Large ribosomal subunit protein bL21 in PDB entry 6vyt, assembly 1, side view.
Large ribosomal subunit protein bL21 in PDB entry 6vyt, assembly 1, top view.
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Large ribosomal subunit protein uL22
Chain: 1
Length: 110 amino acids
Theoretical weight: 12.25 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P61175 (Residues: 1-110; Coverage: 100%)
Gene names: JW3277, b3315, eryB, rplV
Pfam: Ribosomal protein L22p/L17e
InterPro:
Large ribosomal subunit protein uL22 in PDB entry 6vyt, assembly 1, front view.
Large ribosomal subunit protein uL22 in PDB entry 6vyt, assembly 1, side view.
Large ribosomal subunit protein uL22 in PDB entry 6vyt, assembly 1, top view.
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Large ribosomal subunit protein uL23
Chain: 2
Length: 100 amino acids
Theoretical weight: 11.22 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0ADZ0 (Residues: 1-100; Coverage: 100%)
Gene names: JW3280, b3318, rplW
Pfam: Ribosomal protein L23
InterPro:
Large ribosomal subunit protein uL23 in PDB entry 6vyt, assembly 1, front view.
Large ribosomal subunit protein uL23 in PDB entry 6vyt, assembly 1, side view.
Large ribosomal subunit protein uL23 in PDB entry 6vyt, assembly 1, top view.
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Large ribosomal subunit protein uL24
Chain: 3
Length: 104 amino acids
Theoretical weight: 11.34 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P60624 (Residues: 1-104; Coverage: 100%)
Gene names: JW3271, b3309, rplX
Pfam:
InterPro:
Large ribosomal subunit protein uL24 in PDB entry 6vyt, assembly 1, front view.
Large ribosomal subunit protein uL24 in PDB entry 6vyt, assembly 1, side view.
Large ribosomal subunit protein uL24 in PDB entry 6vyt, assembly 1, top view.
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Large ribosomal subunit protein bL25
Chain: 4
Length: 94 amino acids
Theoretical weight: 10.71 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P68919 (Residues: 1-94; Coverage: 100%)
Gene names: JW2173, b2185, rplY
Pfam: Ribosomal L25p family
InterPro:
Large ribosomal subunit protein bL25 in PDB entry 6vyt, assembly 1, front view.
Large ribosomal subunit protein bL25 in PDB entry 6vyt, assembly 1, side view.
Large ribosomal subunit protein bL25 in PDB entry 6vyt, assembly 1, top view.
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DNA-directed RNA polymerase subunit beta
Chain: AA
Length: 1342 amino acids
Theoretical weight: 150.82 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0A8V2 (Residues: 1-1342; Coverage: 100%)
Gene names: JW3950, b3987, groN, nitB, rif, ron, rpoB, stl, stv, tabD
Pfam:
InterPro:
DNA-directed RNA polymerase subunit beta in PDB entry 6vyt, assembly 1, front view.
DNA-directed RNA polymerase subunit beta in PDB entry 6vyt, assembly 1, side view.
DNA-directed RNA polymerase subunit beta in PDB entry 6vyt, assembly 1, top view.
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Transcription termination/antitermination protein NusG
Chain: AB
Length: 181 amino acids
Theoretical weight: 20.56 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0AFG0 (Residues: 1-181; Coverage: 100%)
Gene names: JW3945, b3982, nusG
Pfam:
InterPro:
Transcription termination/antitermination protein NusG in PDB entry 6vyt, assembly 1, front view.
Transcription termination/antitermination protein NusG in PDB entry 6vyt, assembly 1, side view.
Transcription termination/antitermination protein NusG in PDB entry 6vyt, assembly 1, top view.
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DNA-directed RNA polymerase subunit alpha
Chains: AC, AD
Length: 329 amino acids
Theoretical weight: 36.56 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0A7Z4 (Residues: 1-329; Coverage: 100%)
Gene names: JW3257, b3295, pez, phs, rpoA, sez
Pfam:
InterPro:
DNA-directed RNA polymerase subunit alpha in PDB entry 6vyt, assembly 1, front view.
DNA-directed RNA polymerase subunit alpha in PDB entry 6vyt, assembly 1, side view.
DNA-directed RNA polymerase subunit alpha in PDB entry 6vyt, assembly 1, top view.
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DNA-directed RNA polymerase subunit beta'
Chain: AE
Length: 1407 amino acids
Theoretical weight: 155.37 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0A8T7 (Residues: 1-1407; Coverage: 100%)
Gene names: JW3951, b3988, rpoC, tabB
Pfam:
InterPro:
DNA-directed RNA polymerase subunit beta' in PDB entry 6vyt, assembly 1, front view.
DNA-directed RNA polymerase subunit beta' in PDB entry 6vyt, assembly 1, side view.
DNA-directed RNA polymerase subunit beta' in PDB entry 6vyt, assembly 1, top view.
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Small ribosomal subunit protein bS18
Chain: C
Length: 66 amino acids
Theoretical weight: 7.73 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0A7T7 (Residues: 10-75; Coverage: 88%)
Gene names: JW4160, b4202, rpsR
Pfam: Ribosomal protein S18
InterPro:
Small ribosomal subunit protein bS18 in PDB entry 6vyt, assembly 1, front view.
Small ribosomal subunit protein bS18 in PDB entry 6vyt, assembly 1, side view.
Small ribosomal subunit protein bS18 in PDB entry 6vyt, assembly 1, top view.
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Small ribosomal subunit protein bS20
Chain: E
Length: 87 amino acids
Theoretical weight: 9.71 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0A7U7 (Residues: 1-87; Coverage: 100%)
Gene names: JW0022, b0023, rpsT
Pfam: Ribosomal protein S20
InterPro:
Small ribosomal subunit protein bS20 in PDB entry 6vyt, assembly 1, front view.
Small ribosomal subunit protein bS20 in PDB entry 6vyt, assembly 1, side view.
Small ribosomal subunit protein bS20 in PDB entry 6vyt, assembly 1, top view.
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Small ribosomal subunit protein bS21
Chain: F
Length: 71 amino acids
Theoretical weight: 8.52 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P68679 (Residues: 1-71; Coverage: 100%)
Gene names: JW3037, b3065, rpsU
Pfam: Ribosomal protein S21
InterPro:
Small ribosomal subunit protein bS21 in PDB entry 6vyt, assembly 1, front view.
Small ribosomal subunit protein bS21 in PDB entry 6vyt, assembly 1, side view.
Small ribosomal subunit protein bS21 in PDB entry 6vyt, assembly 1, top view.
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Small ribosomal subunit protein uS2
Chain: G
Length: 241 amino acids
Theoretical weight: 26.78 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0A7V0 (Residues: 1-241; Coverage: 100%)
Gene names: JW0164, b0169, rpsB
Pfam: Ribosomal protein S2
InterPro:
Small ribosomal subunit protein uS2 in PDB entry 6vyt, assembly 1, front view.
Small ribosomal subunit protein uS2 in PDB entry 6vyt, assembly 1, side view.
Small ribosomal subunit protein uS2 in PDB entry 6vyt, assembly 1, top view.
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Small ribosomal subunit protein bS1
Chain: H
Length: 557 amino acids
Theoretical weight: 61.24 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0AG67 (Residues: 1-557; Coverage: 100%)
Gene names: JW0894, b0911, rpsA, ssyF
Pfam: S1 RNA binding domain
InterPro:
Small ribosomal subunit protein bS1 in PDB entry 6vyt, assembly 1, front view.
Small ribosomal subunit protein bS1 in PDB entry 6vyt, assembly 1, side view.
Small ribosomal subunit protein bS1 in PDB entry 6vyt, assembly 1, top view.
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Small ribosomal subunit protein uS3
Chain: I
Length: 233 amino acids
Theoretical weight: 26.03 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0A7V3 (Residues: 1-233; Coverage: 100%)
Gene names: JW3276, b3314, rpsC
Pfam:
InterPro:
Small ribosomal subunit protein uS3 in PDB entry 6vyt, assembly 1, front view.
Small ribosomal subunit protein uS3 in PDB entry 6vyt, assembly 1, side view.
Small ribosomal subunit protein uS3 in PDB entry 6vyt, assembly 1, top view.
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Small ribosomal subunit protein uS4
Chain: J
Length: 206 amino acids
Theoretical weight: 23.51 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0A7V8 (Residues: 1-206; Coverage: 100%)
Gene names: JW3258, b3296, ramA, rpsD
Pfam:
InterPro:
Small ribosomal subunit protein uS4 in PDB entry 6vyt, assembly 1, front view.
Small ribosomal subunit protein uS4 in PDB entry 6vyt, assembly 1, side view.
Small ribosomal subunit protein uS4 in PDB entry 6vyt, assembly 1, top view.
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Small ribosomal subunit protein uS5
Chain: K
Length: 167 amino acids
Theoretical weight: 17.63 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0A7W1 (Residues: 1-167; Coverage: 100%)
Gene names: JW3265, b3303, rpsE, spc
Pfam:
InterPro:
Small ribosomal subunit protein uS5 in PDB entry 6vyt, assembly 1, front view.
Small ribosomal subunit protein uS5 in PDB entry 6vyt, assembly 1, side view.
Small ribosomal subunit protein uS5 in PDB entry 6vyt, assembly 1, top view.
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Small ribosomal subunit protein bS6
Chain: L
Length: 135 amino acids
Theoretical weight: 15.73 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P02358 (Residues: 1-135; Coverage: 100%)
Gene names: JW4158, b4200, rpsF
Pfam: Ribosomal protein S6
InterPro:
Small ribosomal subunit protein bS6 in PDB entry 6vyt, assembly 1, front view.
Small ribosomal subunit protein bS6 in PDB entry 6vyt, assembly 1, side view.
Small ribosomal subunit protein bS6 in PDB entry 6vyt, assembly 1, top view.
Molecule details ›

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Small ribosomal subunit protein uS7
Chain: M
Length: 179 amino acids
Theoretical weight: 20.06 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P02359 (Residues: 1-179; Coverage: 100%)
Gene names: JW3303, b3341, rpsG
Pfam: Ribosomal protein S7p/S5e
InterPro:
Small ribosomal subunit protein uS7 in PDB entry 6vyt, assembly 1, front view.
Small ribosomal subunit protein uS7 in PDB entry 6vyt, assembly 1, side view.
Small ribosomal subunit protein uS7 in PDB entry 6vyt, assembly 1, top view.
Molecule details ›

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Small ribosomal subunit protein uS8
Chain: N
Length: 130 amino acids
Theoretical weight: 14.15 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0A7W7 (Residues: 1-130; Coverage: 100%)
Gene names: JW3268, b3306, rpsH
Pfam: Ribosomal protein S8
InterPro:
Small ribosomal subunit protein uS8 in PDB entry 6vyt, assembly 1, front view.
Small ribosomal subunit protein uS8 in PDB entry 6vyt, assembly 1, side view.
Small ribosomal subunit protein uS8 in PDB entry 6vyt, assembly 1, top view.
Molecule details ›

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Small ribosomal subunit protein uS9
Chain: O
Length: 130 amino acids
Theoretical weight: 14.89 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0A7X3 (Residues: 1-130; Coverage: 100%)
Gene names: JW3199, b3230, rpsI
Pfam: Ribosomal protein S9/S16
InterPro:
Small ribosomal subunit protein uS9 in PDB entry 6vyt, assembly 1, front view.
Small ribosomal subunit protein uS9 in PDB entry 6vyt, assembly 1, side view.
Small ribosomal subunit protein uS9 in PDB entry 6vyt, assembly 1, top view.
Molecule details ›

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Small ribosomal subunit protein uS10
Chain: P
Length: 103 amino acids
Theoretical weight: 11.76 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0A7R5 (Residues: 1-103; Coverage: 100%)
Gene names: JW3283, b3321, nusE, rpsJ
Pfam: Ribosomal protein S10p/S20e
InterPro:
Small ribosomal subunit protein uS10 in PDB entry 6vyt, assembly 1, front view.
Small ribosomal subunit protein uS10 in PDB entry 6vyt, assembly 1, side view.
Small ribosomal subunit protein uS10 in PDB entry 6vyt, assembly 1, top view.
Molecule details ›

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Small ribosomal subunit protein uS11
Chain: Q
Length: 129 amino acids
Theoretical weight: 13.87 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0A7R9 (Residues: 1-129; Coverage: 100%)
Gene names: JW3259, b3297, rpsK
Pfam: Ribosomal protein S11
InterPro:
Small ribosomal subunit protein uS11 in PDB entry 6vyt, assembly 1, front view.
Small ribosomal subunit protein uS11 in PDB entry 6vyt, assembly 1, side view.
Small ribosomal subunit protein uS11 in PDB entry 6vyt, assembly 1, top view.
Molecule details ›

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Small ribosomal subunit protein uS12
Chain: R
Length: 124 amino acids
Theoretical weight: 13.77 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0A7S3 (Residues: 1-124; Coverage: 100%)
Gene names: JW3304, b3342, rpsL, strA
Pfam: Ribosomal protein S12/S23
InterPro:
Small ribosomal subunit protein uS12 in PDB entry 6vyt, assembly 1, front view.
Small ribosomal subunit protein uS12 in PDB entry 6vyt, assembly 1, side view.
Small ribosomal subunit protein uS12 in PDB entry 6vyt, assembly 1, top view.
Molecule details ›

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Small ribosomal subunit protein uS14
Chain: S
Length: 101 amino acids
Theoretical weight: 11.61 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0AG59 (Residues: 1-101; Coverage: 100%)
Gene names: JW3269, b3307, rpsN
Pfam: Ribosomal protein S14p/S29e
InterPro:
Small ribosomal subunit protein uS14 in PDB entry 6vyt, assembly 1, front view.
Small ribosomal subunit protein uS14 in PDB entry 6vyt, assembly 1, side view.
Small ribosomal subunit protein uS14 in PDB entry 6vyt, assembly 1, top view.
Molecule details ›

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Small ribosomal subunit protein uS15
Chain: T
Length: 89 amino acids
Theoretical weight: 10.29 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0ADZ4 (Residues: 1-89; Coverage: 100%)
Gene names: JW3134, b3165, rpsO, secC
Pfam: Ribosomal protein S15
InterPro:
Small ribosomal subunit protein uS15 in PDB entry 6vyt, assembly 1, front view.
Small ribosomal subunit protein uS15 in PDB entry 6vyt, assembly 1, side view.
Small ribosomal subunit protein uS15 in PDB entry 6vyt, assembly 1, top view.
Molecule details ›

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Small ribosomal subunit protein bS16
Chain: U
Length: 82 amino acids
Theoretical weight: 9.21 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0A7T3 (Residues: 1-82; Coverage: 100%)
Gene names: JW2590, b2609, rpsP
Pfam: Ribosomal protein S16
InterPro:
Small ribosomal subunit protein bS16 in PDB entry 6vyt, assembly 1, front view.
Small ribosomal subunit protein bS16 in PDB entry 6vyt, assembly 1, side view.
Small ribosomal subunit protein bS16 in PDB entry 6vyt, assembly 1, top view.
Molecule details ›

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Small ribosomal subunit protein uS17
Chain: V
Length: 84 amino acids
Theoretical weight: 9.72 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0AG63 (Residues: 1-84; Coverage: 100%)
Gene names: JW3273, b3311, neaA, rpsQ
Pfam: Ribosomal protein S17
InterPro:
Small ribosomal subunit protein uS17 in PDB entry 6vyt, assembly 1, front view.
Small ribosomal subunit protein uS17 in PDB entry 6vyt, assembly 1, side view.
Small ribosomal subunit protein uS17 in PDB entry 6vyt, assembly 1, top view.
Molecule details ›

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Small ribosomal subunit protein uS19
Chain: W
Length: 92 amino acids
Theoretical weight: 10.46 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0A7U3 (Residues: 1-92; Coverage: 100%)
Gene names: JW3278, b3316, rpsS
Pfam: Ribosomal protein S19
InterPro:
Small ribosomal subunit protein uS19 in PDB entry 6vyt, assembly 1, front view.
Small ribosomal subunit protein uS19 in PDB entry 6vyt, assembly 1, side view.
Small ribosomal subunit protein uS19 in PDB entry 6vyt, assembly 1, top view.
Molecule details ›

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Small ribosomal subunit protein uS13
Chain: X
Length: 118 amino acids
Theoretical weight: 13.13 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0A7S9 (Residues: 1-118; Coverage: 100%)
Gene names: JW3260, b3298, rpsM
Pfam: Ribosomal protein S13/S18
InterPro:
Small ribosomal subunit protein uS13 in PDB entry 6vyt, assembly 1, front view.
Small ribosomal subunit protein uS13 in PDB entry 6vyt, assembly 1, side view.
Small ribosomal subunit protein uS13 in PDB entry 6vyt, assembly 1, top view.
Molecule details ›

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Large ribosomal subunit protein bL27
Chain: b
Length: 85 amino acids
Theoretical weight: 9.15 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0A7L8 (Residues: 1-85; Coverage: 100%)
Gene names: JW3152, b3185, rpmA
Pfam: Ribosomal L27 protein
InterPro:
Large ribosomal subunit protein bL27 in PDB entry 6vyt, assembly 1, front view.
Large ribosomal subunit protein bL27 in PDB entry 6vyt, assembly 1, side view.
Large ribosomal subunit protein bL27 in PDB entry 6vyt, assembly 1, top view.
Molecule details ›

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Large ribosomal subunit protein bL28
Chain: c
Length: 78 amino acids
Theoretical weight: 9.03 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0A7M2 (Residues: 1-78; Coverage: 100%)
Gene names: JW3612, b3637, rpmB
Pfam: Ribosomal L28 family
InterPro:
Large ribosomal subunit protein bL28 in PDB entry 6vyt, assembly 1, front view.
Large ribosomal subunit protein bL28 in PDB entry 6vyt, assembly 1, side view.
Large ribosomal subunit protein bL28 in PDB entry 6vyt, assembly 1, top view.
Molecule details ›

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Large ribosomal subunit protein uL29
Chain: e
Length: 63 amino acids
Theoretical weight: 7.29 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0A7M6 (Residues: 1-63; Coverage: 100%)
Gene names: JW3274, b3312, rpmC
Pfam: Ribosomal L29 protein
InterPro:
Large ribosomal subunit protein uL29 in PDB entry 6vyt, assembly 1, front view.
Large ribosomal subunit protein uL29 in PDB entry 6vyt, assembly 1, side view.
Large ribosomal subunit protein uL29 in PDB entry 6vyt, assembly 1, top view.
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Large ribosomal subunit protein uL30
Chain: f
Length: 59 amino acids
Theoretical weight: 6.55 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0AG51 (Residues: 1-59; Coverage: 100%)
Gene names: JW3264, b3302, rpmD
Pfam: Ribosomal protein L30p/L7e
InterPro:
Large ribosomal subunit protein uL30 in PDB entry 6vyt, assembly 1, front view.
Large ribosomal subunit protein uL30 in PDB entry 6vyt, assembly 1, side view.
Large ribosomal subunit protein uL30 in PDB entry 6vyt, assembly 1, top view.
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Large ribosomal subunit protein bL31
Chain: g
Length: 70 amino acids
Theoretical weight: 7.89 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0A7M9 (Residues: 1-70; Coverage: 100%)
Gene names: JW3907, b3936, rpmE
Pfam: Ribosomal protein L31
InterPro:
Large ribosomal subunit protein bL31 in PDB entry 6vyt, assembly 1, front view.
Large ribosomal subunit protein bL31 in PDB entry 6vyt, assembly 1, side view.
Large ribosomal subunit protein bL31 in PDB entry 6vyt, assembly 1, top view.
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Large ribosomal subunit protein uL2
Chain: h
Length: 273 amino acids
Theoretical weight: 29.92 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P60422 (Residues: 1-273; Coverage: 100%)
Gene names: JW3279, b3317, rplB
Pfam:
InterPro:
Large ribosomal subunit protein uL2 in PDB entry 6vyt, assembly 1, front view.
Large ribosomal subunit protein uL2 in PDB entry 6vyt, assembly 1, side view.
Large ribosomal subunit protein uL2 in PDB entry 6vyt, assembly 1, top view.
Molecule details ›

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Large ribosomal subunit protein bL32
Chain: i
Length: 57 amino acids
Theoretical weight: 6.46 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0A7N4 (Residues: 1-57; Coverage: 100%)
Gene names: JW1075, b1089, rpmF
Pfam: Ribosomal L32p protein family
InterPro:
Large ribosomal subunit protein bL32 in PDB entry 6vyt, assembly 1, front view.
Large ribosomal subunit protein bL32 in PDB entry 6vyt, assembly 1, side view.
Large ribosomal subunit protein bL32 in PDB entry 6vyt, assembly 1, top view.
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Large ribosomal subunit protein uL3
Chain: j
Length: 209 amino acids
Theoretical weight: 22.28 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P60438 (Residues: 1-209; Coverage: 100%)
Gene names: JW3282, b3320, rplC
Pfam: Ribosomal protein L3
InterPro:
Large ribosomal subunit protein uL3 in PDB entry 6vyt, assembly 1, front view.
Large ribosomal subunit protein uL3 in PDB entry 6vyt, assembly 1, side view.
Large ribosomal subunit protein uL3 in PDB entry 6vyt, assembly 1, top view.
Molecule details ›

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Large ribosomal subunit protein bL33
Chain: k
Length: 55 amino acids
Theoretical weight: 6.39 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0A7N9 (Residues: 1-55; Coverage: 100%)
Gene names: JW3611, b3636, rpmG
Pfam: Ribosomal protein L33
InterPro:
Large ribosomal subunit protein bL33 in PDB entry 6vyt, assembly 1, front view.
Large ribosomal subunit protein bL33 in PDB entry 6vyt, assembly 1, side view.
Large ribosomal subunit protein bL33 in PDB entry 6vyt, assembly 1, top view.
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Large ribosomal subunit protein uL4
Chain: l
Length: 201 amino acids
Theoretical weight: 22.12 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P60723 (Residues: 1-201; Coverage: 100%)
Gene names: JW3281, b3319, eryA, rplD
Pfam: Ribosomal protein L4/L1 family
InterPro:
Large ribosomal subunit protein uL4 in PDB entry 6vyt, assembly 1, front view.
Large ribosomal subunit protein uL4 in PDB entry 6vyt, assembly 1, side view.
Large ribosomal subunit protein uL4 in PDB entry 6vyt, assembly 1, top view.
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Large ribosomal subunit protein bL34
Chain: m
Length: 46 amino acids
Theoretical weight: 5.4 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0A7P5 (Residues: 1-46; Coverage: 100%)
Gene names: JW3680, b3703, rimA, rpmH, ssaF
Pfam: Ribosomal protein L34
InterPro:
Large ribosomal subunit protein bL34 in PDB entry 6vyt, assembly 1, front view.
Large ribosomal subunit protein bL34 in PDB entry 6vyt, assembly 1, side view.
Large ribosomal subunit protein bL34 in PDB entry 6vyt, assembly 1, top view.
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Large ribosomal subunit protein uL5
Chain: n
Length: 179 amino acids
Theoretical weight: 20.33 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P62399 (Residues: 1-179; Coverage: 100%)
Gene names: JW3270, b3308, rplE
Pfam:
InterPro:
Large ribosomal subunit protein uL5 in PDB entry 6vyt, assembly 1, front view.
Large ribosomal subunit protein uL5 in PDB entry 6vyt, assembly 1, side view.
Large ribosomal subunit protein uL5 in PDB entry 6vyt, assembly 1, top view.
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Large ribosomal subunit protein bL35
Chain: o
Length: 65 amino acids
Theoretical weight: 7.31 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0A7Q1 (Residues: 1-65; Coverage: 100%)
Gene names: JW1707, b1717, rpmI
Pfam: Ribosomal protein L35
InterPro:
Large ribosomal subunit protein bL35 in PDB entry 6vyt, assembly 1, front view.
Large ribosomal subunit protein bL35 in PDB entry 6vyt, assembly 1, side view.
Large ribosomal subunit protein bL35 in PDB entry 6vyt, assembly 1, top view.
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Large ribosomal subunit protein uL6
Chain: p
Length: 177 amino acids
Theoretical weight: 18.93 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0AG55 (Residues: 1-177; Coverage: 100%)
Gene names: JW3267, b3305, rplF
Pfam: Ribosomal protein L6
InterPro:
Large ribosomal subunit protein uL6 in PDB entry 6vyt, assembly 1, front view.
Large ribosomal subunit protein uL6 in PDB entry 6vyt, assembly 1, side view.
Large ribosomal subunit protein uL6 in PDB entry 6vyt, assembly 1, top view.
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Large ribosomal subunit protein bL36A
Chain: q
Length: 38 amino acids
Theoretical weight: 4.38 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0A7Q6 (Residues: 1-38; Coverage: 100%)
Gene names: JW3261, b3299, rpmJ
Pfam: Ribosomal protein L36
InterPro:
Large ribosomal subunit protein bL36A in PDB entry 6vyt, assembly 1, front view.
Large ribosomal subunit protein bL36A in PDB entry 6vyt, assembly 1, side view.
Large ribosomal subunit protein bL36A in PDB entry 6vyt, assembly 1, top view.
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Large ribosomal subunit protein bL9
Chain: r
Length: 149 amino acids
Theoretical weight: 15.79 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0A7R1 (Residues: 1-149; Coverage: 100%)
Gene names: JW4161, b4203, rplI
Pfam:
InterPro:
Large ribosomal subunit protein bL9 in PDB entry 6vyt, assembly 1, front view.
Large ribosomal subunit protein bL9 in PDB entry 6vyt, assembly 1, side view.
Large ribosomal subunit protein bL9 in PDB entry 6vyt, assembly 1, top view.
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Large ribosomal subunit protein uL13
Chain: s
Length: 142 amino acids
Theoretical weight: 16.05 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0AA10 (Residues: 1-142; Coverage: 100%)
Gene names: JW3200, b3231, rplM
Pfam: Ribosomal protein L13
InterPro:
Large ribosomal subunit protein uL13 in PDB entry 6vyt, assembly 1, front view.
Large ribosomal subunit protein uL13 in PDB entry 6vyt, assembly 1, side view.
Large ribosomal subunit protein uL13 in PDB entry 6vyt, assembly 1, top view.
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Large ribosomal subunit protein uL14
Chain: t
Length: 123 amino acids
Theoretical weight: 13.57 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0ADY3 (Residues: 1-123; Coverage: 100%)
Gene names: JW3272, b3310, rplN
Pfam: Ribosomal protein L14p/L23e
InterPro:
Large ribosomal subunit protein uL14 in PDB entry 6vyt, assembly 1, front view.
Large ribosomal subunit protein uL14 in PDB entry 6vyt, assembly 1, side view.
Large ribosomal subunit protein uL14 in PDB entry 6vyt, assembly 1, top view.
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Large ribosomal subunit protein uL15
Chain: u
Length: 144 amino acids
Theoretical weight: 15.01 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P02413 (Residues: 1-144; Coverage: 100%)
Gene names: JW3263, b3301, rplO
Pfam: Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27A
InterPro:
Large ribosomal subunit protein uL15 in PDB entry 6vyt, assembly 1, front view.
Large ribosomal subunit protein uL15 in PDB entry 6vyt, assembly 1, side view.
Large ribosomal subunit protein uL15 in PDB entry 6vyt, assembly 1, top view.
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Large ribosomal subunit protein uL16
Chain: v
Length: 136 amino acids
Theoretical weight: 15.31 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0ADY7 (Residues: 1-136; Coverage: 100%)
Gene names: JW3275, b3313, rplP
Pfam: Ribosomal protein L16p/L10e
InterPro:
Large ribosomal subunit protein uL16 in PDB entry 6vyt, assembly 1, front view.
Large ribosomal subunit protein uL16 in PDB entry 6vyt, assembly 1, side view.
Large ribosomal subunit protein uL16 in PDB entry 6vyt, assembly 1, top view.
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Large ribosomal subunit protein bL17
Chain: w
Length: 127 amino acids
Theoretical weight: 14.39 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0AG44 (Residues: 1-127; Coverage: 100%)
Gene names: JW3256, b3294, rplQ
Pfam: Ribosomal protein L17
InterPro:
Large ribosomal subunit protein bL17 in PDB entry 6vyt, assembly 1, front view.
Large ribosomal subunit protein bL17 in PDB entry 6vyt, assembly 1, side view.
Large ribosomal subunit protein bL17 in PDB entry 6vyt, assembly 1, top view.
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Large ribosomal subunit protein uL18
Chain: x
Length: 117 amino acids
Theoretical weight: 12.79 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0C018 (Residues: 1-117; Coverage: 100%)
Gene names: JW3266, b3304, rplR
Pfam: Ribosomal L18 of archaea, bacteria, mitoch. and chloroplast
InterPro:
Large ribosomal subunit protein uL18 in PDB entry 6vyt, assembly 1, front view.
Large ribosomal subunit protein uL18 in PDB entry 6vyt, assembly 1, side view.
Large ribosomal subunit protein uL18 in PDB entry 6vyt, assembly 1, top view.
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Large ribosomal subunit protein bL19
Chain: y
Length: 115 amino acids
Theoretical weight: 13.16 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0A7K6 (Residues: 1-115; Coverage: 100%)
Gene names: JW2587, b2606, rplS
Pfam: Ribosomal protein L19
InterPro:
Large ribosomal subunit protein bL19 in PDB entry 6vyt, assembly 1, front view.
Large ribosomal subunit protein bL19 in PDB entry 6vyt, assembly 1, side view.
Large ribosomal subunit protein bL19 in PDB entry 6vyt, assembly 1, top view.
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Large ribosomal subunit protein bL20
Chain: z
Length: 118 amino acids
Theoretical weight: 13.53 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0A7L3 (Residues: 1-118; Coverage: 100%)
Gene names: JW1706, b1716, pdzA, rplT
Pfam: Ribosomal protein L20
InterPro:
Large ribosomal subunit protein bL20 in PDB entry 6vyt, assembly 1, front view.
Large ribosomal subunit protein bL20 in PDB entry 6vyt, assembly 1, side view.
Large ribosomal subunit protein bL20 in PDB entry 6vyt, assembly 1, top view.
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DNA chain 5
Name: NT DNA
Representative chains: 5
Length: 36 nucleotides
Theoretical weight: 11.04 KDa
NT DNA in PDB entry 6vyt, assembly 1, front view.
NT DNA in PDB entry 6vyt, assembly 1, side view.
NT DNA in PDB entry 6vyt, assembly 1, top view.
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DNA chain 6
Name: T DNA
Representative chains: 6
Length: 36 nucleotides
Theoretical weight: 10.96 KDa
T DNA in PDB entry 6vyt, assembly 1, front view.
T DNA in PDB entry 6vyt, assembly 1, side view.
T DNA in PDB entry 6vyt, assembly 1, top view.
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RNA chain 7
Name: mRNA with a 15 nt long spacer
Representative chains: 7
Length: 32 nucleotides
Theoretical weight: 10.16 KDa
mRNA with a 15 nt long spacer in PDB entry 6vyt, assembly 1, front view.
mRNA with a 15 nt long spacer in PDB entry 6vyt, assembly 1, side view.
mRNA with a 15 nt long spacer in PDB entry 6vyt, assembly 1, top view.
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RNA chains A, B
Name: E-site and P-site tRNA (fMet)
Representative chains: A, B
Length: 76 nucleotides
Theoretical weight: 24.5 KDa
Rfam: tRNA
E-site and P-site tRNA (fMet) in PDB entry 6vyt, assembly 1, front view.
E-site and P-site tRNA (fMet) in PDB entry 6vyt, assembly 1, side view.
E-site and P-site tRNA (fMet) in PDB entry 6vyt, assembly 1, top view.
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RNA chain D
Name: 16S ribosomal RNA
Representative chains: D
Length: 1542 nucleotides
Theoretical weight: 499.69 KDa
Rfam: Bacterial small subunit ribosomal RNA
16S ribosomal RNA in PDB entry 6vyt, assembly 1, front view.
16S ribosomal RNA in PDB entry 6vyt, assembly 1, side view.
16S ribosomal RNA in PDB entry 6vyt, assembly 1, top view.
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RNA chain Y
Name: mRNA in the ribosomal RNA entrance pore
Representative chains: Y
Length: 3 nucleotides
Theoretical weight: 874 Da
mRNA in the ribosomal RNA entrance pore in PDB entry 6vyt, assembly 1, front view.
mRNA in the ribosomal RNA entrance pore in PDB entry 6vyt, assembly 1, side view.
mRNA in the ribosomal RNA entrance pore in PDB entry 6vyt, assembly 1, top view.
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RNA chain a
Name: 23S ribosomal RNA
Representative chains: a
Length: 2904 nucleotides
Theoretical weight: 941.64 KDa
Rfam: Bacterial large subunit ribosomal RNA
23S ribosomal RNA in PDB entry 6vyt, assembly 1, front view.
23S ribosomal RNA in PDB entry 6vyt, assembly 1, side view.
23S ribosomal RNA in PDB entry 6vyt, assembly 1, top view.
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RNA chain d
Name: 5S ribosomal RNA
Representative chains: d
Length: 120 nucleotides
Theoretical weight: 38.79 KDa
Rfam: 5S ribosomal RNA
5S ribosomal RNA in PDB entry 6vyt, assembly 1, front view.
5S ribosomal RNA in PDB entry 6vyt, assembly 1, side view.
5S ribosomal RNA in PDB entry 6vyt, assembly 1, top view.
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