PDBe 2ykr

Electron Microscopy
9.8Å resolution

30S ribosomal subunit with RsgA bound in the presence of GMPPNP

Released:

Function and Biology Details

Structure analysis Details

Assembly composition:
hetero 22-mer (preferred)
Entry contents:
21 distinct polypeptide molecules
1 distinct RNA molecule
Macromolecules (22 distinct):
30S ribosomal protein S2 Chain: B
Molecule details ›
Chain: B
Length: 218 amino acids
Theoretical weight: 24.25 KDa
Source organism: Escherichia coli DH5[alpha]
UniProt:
  • Canonical: P0A7V0 (Residues: 9-226; Coverage: 91%)
Gene names: JW0164, b0169, rpsB
Sequence domains: Ribosomal protein S2
30S ribosomal protein S3 Chain: C
Molecule details ›
Chain: C
Length: 206 amino acids
Theoretical weight: 23.08 KDa
Source organism: Escherichia coli DH5[alpha]
UniProt:
  • Canonical: P0A7V3 (Residues: 2-207; Coverage: 88%)
Gene names: JW3276, b3314, rpsC
Sequence domains:
30S ribosomal protein S4 Chain: D
Molecule details ›
Chain: D
Length: 205 amino acids
Theoretical weight: 23.38 KDa
Source organism: Escherichia coli DH5[alpha]
UniProt:
  • Canonical: P0A7V8 (Residues: 2-206; Coverage: 100%)
Gene names: JW3258, b3296, ramA, rpsD
Sequence domains:
30S ribosomal protein S5 Chain: E
Molecule details ›
Chain: E
Length: 150 amino acids
Theoretical weight: 15.8 KDa
Source organism: Escherichia coli DH5[alpha]
UniProt:
  • Canonical: P0A7W1 (Residues: 10-159; Coverage: 90%)
Gene names: JW3265, b3303, rpsE, spc
Sequence domains:
30S ribosomal protein S6, non-modified isoform Chain: F
Molecule details ›
Chain: F
Length: 100 amino acids
Theoretical weight: 11.67 KDa
Source organism: Escherichia coli DH5[alpha]
UniProt:
  • Canonical: P02358 (Residues: 1-100; Coverage: 74%)
Gene names: JW4158, b4200, rpsF
Sequence domains: Ribosomal protein S6
30S ribosomal protein S7 Chain: G
Molecule details ›
Chain: G
Length: 151 amino acids
Theoretical weight: 16.86 KDa
Source organism: Escherichia coli DH5[alpha]
UniProt:
  • Canonical: P02359 (Residues: 2-152; Coverage: 84%)
Gene names: JW3303, b3341, rpsG
30S ribosomal protein S8 Chain: H
Molecule details ›
Chain: H
Length: 129 amino acids
Theoretical weight: 14.02 KDa
Source organism: Escherichia coli DH5[alpha]
UniProt:
  • Canonical: P0A7W7 (Residues: 2-130; Coverage: 99%)
Gene names: JW3268, b3306, rpsH
Sequence domains: Ribosomal protein S8
30S ribosomal protein S9 Chain: I
Molecule details ›
Chain: I
Length: 127 amino acids
Theoretical weight: 14.55 KDa
Source organism: Escherichia coli DH5[alpha]
UniProt:
  • Canonical: P0A7X3 (Residues: 4-130; Coverage: 98%)
Gene names: JW3199, b3230, rpsI
Sequence domains: Ribosomal protein S9/S16
30S ribosomal protein S10 Chain: J
Molecule details ›
Chain: J
Length: 98 amino acids
Theoretical weight: 11.2 KDa
Source organism: Escherichia coli DH5[alpha]
UniProt:
  • Canonical: P0A7R5 (Residues: 5-102; Coverage: 95%)
Gene names: JW3283, b3321, nusE, rpsJ
Sequence domains: Ribosomal protein S10p/S20e
30S ribosomal protein S11 Chain: K
Molecule details ›
Chain: K
Length: 117 amino acids
Theoretical weight: 12.49 KDa
Source organism: Escherichia coli DH5[alpha]
UniProt:
  • Canonical: P0A7R9 (Residues: 13-129; Coverage: 91%)
Gene names: JW3259, b3297, rpsK
Sequence domains: Ribosomal protein S11
30S ribosomal protein S12 Chain: L
Molecule details ›
Chain: L
Length: 123 amino acids
Theoretical weight: 13.64 KDa
Source organism: Escherichia coli DH5[alpha]
UniProt:
  • Canonical: P0A7S3 (Residues: 2-124; Coverage: 99%)
Gene names: JW3304, b3342, rpsL, strA
Sequence domains: Ribosomal protein S12/S23
30S ribosomal protein S13 Chain: M
Molecule details ›
Chain: M
Length: 114 amino acids
Theoretical weight: 12.63 KDa
Source organism: Escherichia coli DH5[alpha]
UniProt:
  • Canonical: P0A7S9 (Residues: 2-115; Coverage: 97%)
Gene names: JW3260, b3298, rpsM
Sequence domains: Ribosomal protein S13/S18
30S ribosomal protein S14 Chain: N
Molecule details ›
Chain: N
Length: 100 amino acids
Theoretical weight: 11.48 KDa
Source organism: Escherichia coli DH5[alpha]
UniProt:
  • Canonical: P0AG59 (Residues: 2-101; Coverage: 99%)
Gene names: JW3269, b3307, rpsN
Sequence domains: Ribosomal protein S14p/S29e
30S ribosomal protein S15 Chain: O
Molecule details ›
Chain: O
Length: 88 amino acids
Theoretical weight: 10.16 KDa
Source organism: Escherichia coli DH5[alpha]
UniProt:
  • Canonical: P0ADZ4 (Residues: 2-89; Coverage: 99%)
Gene names: JW3134, b3165, rpsO, secC
Sequence domains: Ribosomal protein S15
30S ribosomal protein S16 Chain: P
Molecule details ›
Chain: P
Length: 82 amino acids
Theoretical weight: 9.21 KDa
Source organism: Escherichia coli DH5[alpha]
UniProt:
  • Canonical: P0A7T3 (Residues: 1-82; Coverage: 100%)
Gene names: JW2590, b2609, rpsP
Sequence domains: Ribosomal protein S16
30S ribosomal protein S17 Chain: Q
Molecule details ›
Chain: Q
Length: 80 amino acids
Theoretical weight: 9.26 KDa
Source organism: Escherichia coli DH5[alpha]
UniProt:
  • Canonical: P0AG63 (Residues: 4-83; Coverage: 95%)
Gene names: JW3273, b3311, neaA, rpsQ
Sequence domains: Ribosomal protein S17
30S ribosomal protein S18 Chain: R
Molecule details ›
Chain: R
Length: 55 amino acids
Theoretical weight: 6.47 KDa
Source organism: Escherichia coli DH5[alpha]
UniProt:
  • Canonical: E3PE70 (Residues: 20-74; Coverage: 73%)
Gene names: ETEC_4548, rpsR
30S ribosomal protein S19 Chain: S
Molecule details ›
Chain: S
Length: 79 amino acids
Theoretical weight: 9.06 KDa
Source organism: Escherichia coli DH5[alpha]
UniProt:
  • Canonical: P0A7U3 (Residues: 3-81; Coverage: 86%)
Gene names: JW3278, b3316, rpsS
30S ribosomal protein S20 Chain: T
Molecule details ›
Chain: T
Length: 85 amino acids
Theoretical weight: 9.51 KDa
Source organism: Escherichia coli DH5[alpha]
UniProt:
  • Canonical: P0A7U7 (Residues: 3-87; Coverage: 98%)
Gene names: JW0022, b0023, rpsT
30S ribosomal protein S21 Chain: U
Molecule details ›
Chain: U
Length: 51 amino acids
Theoretical weight: 6.07 KDa
Source organism: Escherichia coli DH5[alpha]
UniProt:
  • Canonical: P68679 (Residues: 4-54; Coverage: 72%)
Gene names: JW3037, b3065, rpsU
Small ribosomal subunit biogenesis GTPase RsgA Chain: W
Molecule details ›
Chain: W
Length: 350 amino acids
Theoretical weight: 39.23 KDa
Source organism: Escherichia coli DH5[alpha]
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P39286 (Residues: 1-350; Coverage: 100%)
Gene names: JW4122, b4161, engC, rsgA, yjeQ
Sequence domains: RsgA GTPase
16S ribosomal RNA Chain: A
Molecule details ›
Chain: A
Length: 1533 nucleotides
Theoretical weight: 496.89 KDa

Ligands and Environments

No bound ligands

No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 9.8Å
Relevant EMDB volumes: EMD-1884
Expression system: Escherichia coli BL21(DE3)