5V7Q image
Deposition Date 2017-03-20
Release Date 2017-09-20
Last Version Date 2024-03-13
Entry Detail
PDB ID:
5V7Q
Keywords:
Title:
Cryo-EM structure of the large ribosomal subunit from Mycobacterium tuberculosis bound with a potent linezolid analog
Biological Source:
Source Organism:
Method Details:
Experimental Method:
Resolution:
3.70 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L32
Chain IDs:A (auth: 0)
Chain Length:57
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L33
Chain IDs:B (auth: 1)
Chain Length:55
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L34
Chain IDs:C (auth: 2)
Chain Length:47
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L35
Chain IDs:D (auth: 3)
Chain Length:64
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L36
Chain IDs:E (auth: 4)
Chain Length:37
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L31
Chain IDs:F (auth: 6)
Chain Length:80
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis
Polymer Type:polyribonucleotide
Molecule:23S rRNA
Chain IDs:G (auth: A)
Chain Length:3138
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis
Polymer Type:polyribonucleotide
Molecule:5S ribosomal RNA
Chain IDs:H (auth: B)
Chain Length:115
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L2
Chain IDs:I (auth: C)
Chain Length:280
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L3
Chain IDs:J (auth: D)
Chain Length:217
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L4
Chain IDs:K (auth: E)
Chain Length:223
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L5
Chain IDs:L (auth: F)
Chain Length:187
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L6
Chain IDs:M (auth: G)
Chain Length:179
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L9
Chain IDs:N (auth: H)
Chain Length:152
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L13
Chain IDs:O (auth: J)
Chain Length:147
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L14
Chain IDs:P (auth: K)
Chain Length:122
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L15
Chain IDs:Q (auth: L)
Chain Length:146
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L16
Chain IDs:R (auth: M)
Chain Length:138
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L17
Chain IDs:S (auth: N)
Chain Length:180
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L18
Chain IDs:T (auth: O)
Chain Length:122
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L19
Chain IDs:U (auth: P)
Chain Length:113
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L20
Chain IDs:V (auth: Q)
Chain Length:129
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis
Polymer Type:polypeptide(L)
Molecule:LSU ribosomal protein L21p
Chain IDs:W (auth: R)
Chain Length:104
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L22
Chain IDs:X (auth: S)
Chain Length:197
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L23
Chain IDs:Y (auth: T)
Chain Length:100
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L24
Chain IDs:Z (auth: U)
Chain Length:105
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L25
Chain IDs:AA (auth: V)
Chain Length:215
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L27
Chain IDs:BA (auth: W)
Chain Length:86
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L28
Chain IDs:CA (auth: X)
Chain Length:64
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L29
Chain IDs:DA (auth: Y)
Chain Length:77
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L30
Chain IDs:EA (auth: Z)
Chain Length:65
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis
Ligand Molecules
Primary Citation
Structural insights into species-specific features of the ribosome from the human pathogen Mycobacterium tuberculosis.
Nucleic Acids Res. 45 10884 10894 (2017)
PMID: 28977617 DOI: 10.1093/nar/gkx785

Abstact

Ribosomes from Mycobacterium tuberculosis (Mtb) possess species-specific ribosomal RNA (rRNA) expansion segments and ribosomal proteins (rProtein). Here, we present the near-atomic structures of the Mtb 50S ribosomal subunit and the complete Mtb 70S ribosome, solved by cryo-electron microscopy. Upon joining of the large and small ribosomal subunits, a 100-nt long expansion segment of the Mtb 23S rRNA, named H54a or the 'handle', switches interactions from with rRNA helix H68 and rProtein uL2 to with rProtein bS6, forming a new intersubunit bridge 'B9'. In Mtb 70S, bridge B9 is mostly maintained, leading to correlated motions among the handle, the L1 stalk and the small subunit in the rotated and non-rotated states. Two new protein densities were discovered near the decoding center and the peptidyl transferase center, respectively. These results provide a structural basis for studying translation in Mtb as well as developing new tuberculosis drugs.

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Protein

Chemical

Disease

Primary Citation of related structures