9O2X image
Deposition Date 2025-04-04
Release Date 2026-03-18
Last Version Date 2026-03-25
Entry Detail
PDB ID:
9O2X
Keywords:
RIBOSOME
Title:
Structure of WT E.coli ribosome 70S subunit with complexed with mRNA, P-site fMet-NH-tRNAfMet and A-site (S)-betahydroxyBocK charged NH-tRNAPyl
Biological Source:
Source Organism(s):
Escherichia coli (Taxon ID: 562)
Methanomethylophilus alvi (Taxon ID: 1291540)
Method Details:
Experimental Method:
ELECTRON MICROSCOPY
Resolution:
2.29 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
9O2X validation report
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L33
Chain IDs:A (auth: 0)
Chain Length:55
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L34
Chain IDs:B (auth: 1)
Chain Length:46
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L35
Chain IDs:C (auth: 2)
Chain Length:65
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L36
Chain IDs:D (auth: 3)
Chain Length:38
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L31
Chain IDs:BB (auth: 4)
Chain Length:70
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polyribonucleotide
Molecule:16S rRNA
Chain IDs:ZA (auth: A)
Chain Length:1542
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S2
Chain IDs:E (auth: B)
Chain Length:120
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Chain IDs:F (auth: C)
Chain Length:273
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Chain IDs:G (auth: D)
Chain Length:209
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Chain IDs:H (auth: E)
Chain Length:201
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Chain IDs:I (auth: F)
Chain Length:135
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Chain IDs:J (auth: G)
Chain Length:177
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Chain IDs:K (auth: H)
Chain Length:149
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Chain IDs:L (auth: I)
Chain Length:130
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Chain IDs:M (auth: J)
Chain Length:103
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Chain IDs:N (auth: K)
Chain Length:129
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Chain IDs:O (auth: L)
Chain Length:136
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Chain IDs:P (auth: M)
Chain Length:127
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Chain IDs:Q (auth: N)
Chain Length:117
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Chain IDs:R (auth: O)
Chain Length:115
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Chain IDs:S (auth: P)
Chain Length:82
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Chain IDs:T (auth: Q)
Chain Length:84
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Chain IDs:U (auth: R)
Chain Length:75
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Chain IDs:V (auth: S)
Chain Length:92
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Chain IDs:W (auth: T)
Chain Length:104
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Chain IDs:X (auth: U)
Chain Length:94
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polyribonucleotide
Molecule:mRNA
Chain IDs:Y (auth: X)
Chain Length:28
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polyribonucleotide
Molecule:A-site tRNAPyl
Chain IDs:CB (auth: Y)
Chain Length:59
Number of Molecules:1
Biological Source:Methanomethylophilus alvi
Polymer Type:polyribonucleotide
Molecule:P-site tRNA fMet
Chain IDs:Z
Chain Length:77
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polyribonucleotide
Molecule:23S rRNA
Chain IDs:AB (auth: a)
Chain Length:1542
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polyribonucleotide
Molecule:5S rRNA
Chain IDs:AA (auth: b)
Chain Length:120
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L2
Chain IDs:BA (auth: c)
Chain Length:273
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L3
Chain IDs:CA (auth: d)
Chain Length:209
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Chain IDs:DA (auth: e)
Chain Length:201
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Chain IDs:EA (auth: f)
Chain Length:135
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Chain IDs:FA (auth: g)
Chain Length:177
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Chain IDs:GA (auth: h)
Chain Length:149
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Chain IDs:HA (auth: i)
Chain Length:130
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Chain IDs:IA (auth: j)
Chain Length:103
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Chain IDs:JA (auth: k)
Chain Length:129
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Chain IDs:KA (auth: l)
Chain Length:136
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Chain IDs:LA (auth: m)
Chain Length:127
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Chain IDs:MA (auth: n)
Chain Length:117
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Chain IDs:NA (auth: o)
Chain Length:115
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L20
Chain IDs:OA (auth: p)
Chain Length:82
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Chain IDs:PA (auth: q)
Chain Length:84
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Chain IDs:QA (auth: r)
Chain Length:75
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L23
Chain IDs:RA (auth: s)
Chain Length:92
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L24
Chain IDs:SA (auth: t)
Chain Length:104
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Chain IDs:TA (auth: u)
Chain Length:94
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Chain IDs:UA (auth: v)
Chain Length:85
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L28
Chain IDs:VA (auth: w)
Chain Length:78
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Chain IDs:WA (auth: x)
Chain Length:28
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L30
Chain IDs:XA (auth: y)
Chain Length:59
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L32
Chain IDs:YA (auth: z)
Chain Length:77
Number of Molecules:1
Biological Source:Escherichia coli
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
2MG ZA G modified residue
4D4 KA ARG modified residue
4OC ZA C modified residue
5MC ZA C modified residue
8AN Z A modified residue
D2T O ASP modified residue
G7M ZA G modified residue
MA6 ZA A modified residue
MEQ CA GLN modified residue
PSU ZA U modified residue
UR3 ZA U modified residue
Ligand Molecules
A1B71
FME
K
MG
PAR
SPD
SPM
ZN
Primary Citation
Co-Translational Incorporation of (R) - and (S) -beta 2 -Hydroxy Acids In Vitro : A Structural and Biochemical Study on the E. coli Ribosome.
J.Am.Chem.Soc. 148 9393 9399 (2026)
PMID: 41757712 DOI: 10.1021/jacs.5c18603
Primary Citation of related structures
9O2X
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