ISDA: 9YPK

Deposition Date 2025-10-14

Release Date 2026-10-21

Last Version Date 2026-10-21

Entry Detail

PDB ID:

9YPK

Keywords:

RIBOSOME

Title:

Pseudomonas aeruginosa 50S ribosome (L1 stalk in 'out' conformation)

Biological Source:

Source Organism(s):

Pseudomonas aeruginosa PAO1 (Taxon ID: 208964)

Method Details:

Experimental Method:

ELECTRON MICROSCOPY

Resolution:

2.25 Å

Aggregation State:

PARTICLE

Reconstruction Method:

SINGLE PARTICLE

Download Validation Report

Macromolecular Entities

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):rpmC
Chain IDs:Y (auth: 1)
Chain Length:63
Number of Molecules:1
Biological Source:Pseudomonas aeruginosa PAO1

UniProt ID:Q9HWE3

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):rpmD
Chain IDs:Z (auth: 2)
Chain Length:58
Number of Molecules:1
Biological Source:Pseudomonas aeruginosa PAO1

UniProt ID:Q9HWF3

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):rpmF
Chain IDs:AA (auth: 4)
Chain Length:60
Number of Molecules:1
Biological Source:Pseudomonas aeruginosa PAO1

UniProt ID:Q9HZN4

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):rpmG
Chain IDs:BA (auth: 5)
Chain Length:51
Number of Molecules:1
Biological Source:Pseudomonas aeruginosa PAO1

UniProt ID:Q9HTN9

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):rpmH
Chain IDs:CA (auth: 6)
Chain Length:44
Number of Molecules:1
Biological Source:Pseudomonas aeruginosa PAO1

UniProt ID:P29436

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):rpmI
Chain IDs:DA (auth: 7)
Chain Length:64
Number of Molecules:1
Biological Source:Pseudomonas aeruginosa PAO1

UniProt ID:Q9I0A1

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):rpmJ
Chain IDs:EA (auth: 8)
Chain Length:38
Number of Molecules:1
Biological Source:Pseudomonas aeruginosa PAO1

UniProt ID:Q9HWF6

Polymer Type:polyribonucleotide
Molecule:23S rRNA
Chain IDs:A
Chain Length:2892
Number of Molecules:1
Biological Source:Pseudomonas aeruginosa PAO1

Polymer Type:polyribonucleotide
Molecule:5S rRNA
Chain IDs:B
Chain Length:121
Number of Molecules:1
Biological Source:Pseudomonas aeruginosa PAO1

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):rplA
Chain IDs:C
Chain Length:231
Number of Molecules:1
Biological Source:Pseudomonas aeruginosa PAO1

UniProt ID:Q9HWC6

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):rplB
Chain IDs:D
Chain Length:273
Number of Molecules:1
Biological Source:Pseudomonas aeruginosa PAO1

UniProt ID:Q9HWD8

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):rplC
Chain IDs:E
Chain Length:211
Number of Molecules:1
Biological Source:Pseudomonas aeruginosa PAO1

UniProt ID:Q9HWD5

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):rplD
Chain IDs:F
Chain Length:200
Number of Molecules:1
Biological Source:Pseudomonas aeruginosa PAO1

UniProt ID:Q9HWD6

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):rplE
Chain IDs:G
Chain Length:179
Number of Molecules:1
Biological Source:Pseudomonas aeruginosa PAO1

UniProt ID:Q9HWE7

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):rplF
Chain IDs:H
Chain Length:177
Number of Molecules:1
Biological Source:Pseudomonas aeruginosa PAO1

UniProt ID:Q9HWF0

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):rplI
Chain IDs:I
Chain Length:148
Number of Molecules:1
Biological Source:Pseudomonas aeruginosa PAO1

UniProt ID:Q9HUN2

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):rplJ
Chain IDs:GA (auth: J)
Chain Length:166
Number of Molecules:1
Biological Source:Pseudomonas aeruginosa PAO1

UniProt ID:Q9HWC7

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):rplK
Chain IDs:HA (auth: K)
Chain Length:143
Number of Molecules:1
Biological Source:Pseudomonas aeruginosa PAO1

UniProt ID:Q9HWC5

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):rplM
Chain IDs:J (auth: L)
Chain Length:142
Number of Molecules:1
Biological Source:Pseudomonas aeruginosa PAO1

UniProt ID:Q9HVY2

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):rplN
Chain IDs:K (auth: M)
Chain Length:122
Number of Molecules:1
Biological Source:Pseudomonas aeruginosa PAO1

UniProt ID:Q9HWE5

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):rplO
Chain IDs:L (auth: N)
Chain Length:144
Number of Molecules:1
Biological Source:Pseudomonas aeruginosa PAO1

UniProt ID:Q9HWF4

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):rplP
Chain IDs:M (auth: O)
Chain Length:137
Number of Molecules:1
Biological Source:Pseudomonas aeruginosa PAO1

UniProt ID:Q9HWE2

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):rplQ
Chain IDs:N (auth: P)
Chain Length:129
Number of Molecules:1
Biological Source:Pseudomonas aeruginosa PAO1

UniProt ID:O52761

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):rplR
Chain IDs:O (auth: Q)
Chain Length:116
Number of Molecules:1
Biological Source:Pseudomonas aeruginosa PAO1

UniProt ID:Q9HWF1

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):rplS
Chain IDs:P (auth: R)
Chain Length:116
Number of Molecules:1
Biological Source:Pseudomonas aeruginosa PAO1

UniProt ID:Q9HXQ2

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):rplT
Chain IDs:Q (auth: S)
Chain Length:118
Number of Molecules:1
Biological Source:Pseudomonas aeruginosa PAO1

UniProt ID:Q9I0A2

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):rplU
Chain IDs:R (auth: T)
Chain Length:103
Number of Molecules:1
Biological Source:Pseudomonas aeruginosa PAO1

UniProt ID:Q9HVL6

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):rplV
Chain IDs:S (auth: U)
Chain Length:110
Number of Molecules:1
Biological Source:Pseudomonas aeruginosa PAO1

UniProt ID:Q9HWE0

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):rplW
Chain IDs:T (auth: V)
Chain Length:99
Number of Molecules:1
Biological Source:Pseudomonas aeruginosa PAO1

UniProt ID:Q9HWD7

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):rplX
Chain IDs:U (auth: W)
Chain Length:104
Number of Molecules:1
Biological Source:Pseudomonas aeruginosa PAO1

UniProt ID:Q9HWE6

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):rplY
Chain IDs:V (auth: X)
Chain Length:204
Number of Molecules:1
Biological Source:Pseudomonas aeruginosa PAO1

UniProt ID:Q9HVC4

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):rpmA
Chain IDs:W (auth: Y)
Chain Length:85
Number of Molecules:1
Biological Source:Pseudomonas aeruginosa PAO1

UniProt ID:Q9HVL7

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):rpmB
Chain IDs:X (auth: Z)
Chain Length:78
Number of Molecules:1
Biological Source:Pseudomonas aeruginosa PAO1

UniProt ID:Q9HTN8

Polymer Type:polyribonucleotide
Molecule:tRNA-Ala
Chain IDs:FA (auth: v)
Chain Length:76
Number of Molecules:1
Biological Source:Pseudomonas aeruginosa PAO1

Modified Residue

Compound ID	Chain ID	Parent Comp ID	Details
1MG	A	G	modified residue
2MA	A	A	modified residue
2MG	A	G	modified residue
5MC	A	C	modified residue
5MU	A, FA	U	modified residue
6MZ	A	A	modified residue
7MG	A	G	modified residue
OMC	A	C	modified residue
OMG	A	G	modified residue
OMU	A	U	modified residue
PSU	FA	U	modified residue