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Structure of the E. coli methyltransferase KsgA bound to the E. coli 30S ribosomal subunit

Electron Microscopy
13.5Å resolution
PDB entry 4adv coloured by chain, front view.
PDB entry 4adv coloured by chain, side view.
PDB entry 4adv coloured by chain, top view.
Source organism: Escherichia coli
Assembly composition:
hetero 22-mer (preferred)
Entry contents: 21 distinct polypeptide molecules
1 distinct RNA molecule

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Assemblies

Assembly 1 (preferred)
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Multimeric state: hetero 22-mer
PDBe Complex ID: PDB-CPX-249899

Macromolecules

Small ribosomal subunit protein uS2
Chain: B
Length: 240 amino acids
Theoretical weight: 26.65 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0A7V0 (Residues: 2-241; Coverage: 100%)
Gene names: JW0164, b0169, rpsB
Pfam: Ribosomal protein S2
InterPro:
Small ribosomal subunit protein uS2 in PDB entry 4adv, assembly 1, front view.
Small ribosomal subunit protein uS2 in PDB entry 4adv, assembly 1, side view.
Small ribosomal subunit protein uS2 in PDB entry 4adv, assembly 1, top view.
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Small ribosomal subunit protein uS3
Chain: C
Length: 232 amino acids
Theoretical weight: 25.9 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0A7V3 (Residues: 2-233; Coverage: 100%)
Gene names: JW3276, b3314, rpsC
Pfam:
InterPro:
Small ribosomal subunit protein uS3 in PDB entry 4adv, assembly 1, front view.
Small ribosomal subunit protein uS3 in PDB entry 4adv, assembly 1, side view.
Small ribosomal subunit protein uS3 in PDB entry 4adv, assembly 1, top view.
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Small ribosomal subunit protein uS4
Chain: D
Length: 205 amino acids
Theoretical weight: 23.38 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0A7V8 (Residues: 2-206; Coverage: 100%)
Gene names: JW3258, b3296, ramA, rpsD
Pfam:
InterPro:
Small ribosomal subunit protein uS4 in PDB entry 4adv, assembly 1, front view.
Small ribosomal subunit protein uS4 in PDB entry 4adv, assembly 1, side view.
Small ribosomal subunit protein uS4 in PDB entry 4adv, assembly 1, top view.
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Small ribosomal subunit protein uS5
Chain: E
Length: 166 amino acids
Theoretical weight: 17.5 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0A7W1 (Residues: 2-167; Coverage: 99%)
Gene names: JW3265, b3303, rpsE, spc
Pfam:
InterPro:
Small ribosomal subunit protein uS5 in PDB entry 4adv, assembly 1, front view.
Small ribosomal subunit protein uS5 in PDB entry 4adv, assembly 1, side view.
Small ribosomal subunit protein uS5 in PDB entry 4adv, assembly 1, top view.
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Small ribosomal subunit protein bS6
Chain: F
Length: 135 amino acids
Theoretical weight: 15.73 KDa
Source organism: 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 4adv, assembly 1, front view.
Small ribosomal subunit protein bS6 in PDB entry 4adv, assembly 1, side view.
Small ribosomal subunit protein bS6 in PDB entry 4adv, assembly 1, top view.
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Small ribosomal subunit protein uS7
Chain: G
Length: 178 amino acids
Theoretical weight: 19.92 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P02359 (Residues: 2-179; Coverage: 99%)
Gene names: JW3303, b3341, rpsG
Pfam: Ribosomal protein S7p/S5e
InterPro:
Small ribosomal subunit protein uS7 in PDB entry 4adv, assembly 1, front view.
Small ribosomal subunit protein uS7 in PDB entry 4adv, assembly 1, side view.
Small ribosomal subunit protein uS7 in PDB entry 4adv, assembly 1, top view.
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Small ribosomal subunit protein uS8
Chain: H
Length: 129 amino acids
Theoretical weight: 14.02 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0A7W7 (Residues: 2-130; Coverage: 99%)
Gene names: JW3268, b3306, rpsH
Pfam: Ribosomal protein S8
InterPro:
Small ribosomal subunit protein uS8 in PDB entry 4adv, assembly 1, front view.
Small ribosomal subunit protein uS8 in PDB entry 4adv, assembly 1, side view.
Small ribosomal subunit protein uS8 in PDB entry 4adv, assembly 1, top view.
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Small ribosomal subunit protein uS9
Chain: I
Length: 129 amino acids
Theoretical weight: 14.76 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0A7X3 (Residues: 2-130; Coverage: 99%)
Gene names: JW3199, b3230, rpsI
Pfam: Ribosomal protein S9/S16
InterPro:
Small ribosomal subunit protein uS9 in PDB entry 4adv, assembly 1, front view.
Small ribosomal subunit protein uS9 in PDB entry 4adv, assembly 1, side view.
Small ribosomal subunit protein uS9 in PDB entry 4adv, assembly 1, top view.
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Small ribosomal subunit protein uS10
Chain: J
Length: 103 amino acids
Theoretical weight: 11.76 KDa
Source organism: 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 4adv, assembly 1, front view.
Small ribosomal subunit protein uS10 in PDB entry 4adv, assembly 1, side view.
Small ribosomal subunit protein uS10 in PDB entry 4adv, assembly 1, top view.
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Small ribosomal subunit protein uS11
Chain: K
Length: 128 amino acids
Theoretical weight: 13.74 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0A7R9 (Residues: 2-129; Coverage: 99%)
Gene names: JW3259, b3297, rpsK
Pfam: Ribosomal protein S11
InterPro:
Small ribosomal subunit protein uS11 in PDB entry 4adv, assembly 1, front view.
Small ribosomal subunit protein uS11 in PDB entry 4adv, assembly 1, side view.
Small ribosomal subunit protein uS11 in PDB entry 4adv, assembly 1, top view.
Molecule details ›

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Small ribosomal subunit protein uS12
Chain: L
Length: 123 amino acids
Theoretical weight: 13.64 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0A7S3 (Residues: 2-124; Coverage: 99%)
Gene names: JW3304, b3342, rpsL, strA
Pfam: Ribosomal protein S12/S23
InterPro:
Small ribosomal subunit protein uS12 in PDB entry 4adv, assembly 1, front view.
Small ribosomal subunit protein uS12 in PDB entry 4adv, assembly 1, side view.
Small ribosomal subunit protein uS12 in PDB entry 4adv, assembly 1, top view.
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Small ribosomal subunit protein uS13
Chain: M
Length: 117 amino acids
Theoretical weight: 13 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0A7S9 (Residues: 2-118; Coverage: 99%)
Gene names: JW3260, b3298, rpsM
Pfam: Ribosomal protein S13/S18
InterPro:
Small ribosomal subunit protein uS13 in PDB entry 4adv, assembly 1, front view.
Small ribosomal subunit protein uS13 in PDB entry 4adv, assembly 1, side view.
Small ribosomal subunit protein uS13 in PDB entry 4adv, assembly 1, top view.
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Small ribosomal subunit protein uS14
Chain: N
Length: 100 amino acids
Theoretical weight: 11.48 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0AG59 (Residues: 2-101; Coverage: 99%)
Gene names: JW3269, b3307, rpsN
Pfam: Ribosomal protein S14p/S29e
InterPro:
Small ribosomal subunit protein uS14 in PDB entry 4adv, assembly 1, front view.
Small ribosomal subunit protein uS14 in PDB entry 4adv, assembly 1, side view.
Small ribosomal subunit protein uS14 in PDB entry 4adv, assembly 1, top view.
Molecule details ›

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Small ribosomal subunit protein uS15
Chain: O
Length: 89 amino acids
Theoretical weight: 10.32 KDa
Source organism: 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 4adv, assembly 1, front view.
Small ribosomal subunit protein uS15 in PDB entry 4adv, assembly 1, side view.
Small ribosomal subunit protein uS15 in PDB entry 4adv, assembly 1, top view.
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Small ribosomal subunit protein bS16
Chain: P
Length: 82 amino acids
Theoretical weight: 9.21 KDa
Source organism: 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 4adv, assembly 1, front view.
Small ribosomal subunit protein bS16 in PDB entry 4adv, assembly 1, side view.
Small ribosomal subunit protein bS16 in PDB entry 4adv, assembly 1, top view.
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Small ribosomal subunit protein uS17
Chain: Q
Length: 83 amino acids
Theoretical weight: 9.59 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0AG63 (Residues: 2-84; Coverage: 99%)
Gene names: JW3273, b3311, neaA, rpsQ
Pfam: Ribosomal protein S17
InterPro:
Small ribosomal subunit protein uS17 in PDB entry 4adv, assembly 1, front view.
Small ribosomal subunit protein uS17 in PDB entry 4adv, assembly 1, side view.
Small ribosomal subunit protein uS17 in PDB entry 4adv, assembly 1, top view.
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Small ribosomal subunit protein bS18
Chain: R
Length: 74 amino acids
Theoretical weight: 8.87 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0A7T7 (Residues: 2-75; Coverage: 99%)
Gene names: JW4160, b4202, rpsR
Pfam: Ribosomal protein S18
InterPro:
Small ribosomal subunit protein bS18 in PDB entry 4adv, assembly 1, front view.
Small ribosomal subunit protein bS18 in PDB entry 4adv, assembly 1, side view.
Small ribosomal subunit protein bS18 in PDB entry 4adv, assembly 1, top view.
Molecule details ›

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Small ribosomal subunit protein uS19
Chain: S
Length: 91 amino acids
Theoretical weight: 10.32 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0A7U3 (Residues: 2-92; Coverage: 99%)
Gene names: JW3278, b3316, rpsS
Pfam: Ribosomal protein S19
InterPro:
Small ribosomal subunit protein uS19 in PDB entry 4adv, assembly 1, front view.
Small ribosomal subunit protein uS19 in PDB entry 4adv, assembly 1, side view.
Small ribosomal subunit protein uS19 in PDB entry 4adv, assembly 1, top view.
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Small ribosomal subunit protein bS20
Chain: T
Length: 86 amino acids
Theoretical weight: 9.58 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0A7U7 (Residues: 2-87; Coverage: 99%)
Gene names: JW0022, b0023, rpsT
Pfam: Ribosomal protein S20
InterPro:
Small ribosomal subunit protein bS20 in PDB entry 4adv, assembly 1, front view.
Small ribosomal subunit protein bS20 in PDB entry 4adv, assembly 1, side view.
Small ribosomal subunit protein bS20 in PDB entry 4adv, assembly 1, top view.
Molecule details ›

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Small ribosomal subunit protein bS21
Chain: U
Length: 71 amino acids
Theoretical weight: 8.52 KDa
Source organism: 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 4adv, assembly 1, front view.
Small ribosomal subunit protein bS21 in PDB entry 4adv, assembly 1, side view.
Small ribosomal subunit protein bS21 in PDB entry 4adv, assembly 1, top view.
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Ribosomal RNA small subunit methyltransferase A
Chain: V
Length: 252 amino acids
Theoretical weight: 27.99 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli K-12
UniProt:
  • Canonical: P06992 (Residues: 17-268; Coverage: 92%)
Gene names: JW0050, b0051, ksgA, rsmA
Pfam: Ribosomal RNA adenine dimethylase
InterPro:
Ribosomal RNA small subunit methyltransferase A in PDB entry 4adv, assembly 1, front view.
Ribosomal RNA small subunit methyltransferase A in PDB entry 4adv, assembly 1, side view.
Ribosomal RNA small subunit methyltransferase A in PDB entry 4adv, assembly 1, top view.
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RNA chain A
Name: 16S ribosomal RNA
Representative chains: A
Length: 1542 nucleotides
Theoretical weight: 499.69 KDa
Rfam: Bacterial small subunit ribosomal RNA
16S ribosomal RNA in PDB entry 4adv, assembly 1, front view.
16S ribosomal RNA in PDB entry 4adv, assembly 1, side view.
16S ribosomal RNA in PDB entry 4adv, assembly 1, top view.
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