9J1M image
Deposition Date 2024-08-05
Release Date 2025-03-19
Last Version Date 2025-03-19
Entry Detail
PDB ID:
9J1M
Keywords:
RIBOSOME/ANTIBIOTIC
Title:
KU13-bond Mycobacterium tuberculosis 70S ribosome
Biological Source:
Source Organism:
Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2 (Taxon ID: 410289)
Method Details:
Experimental Method:
ELECTRON MICROSCOPY
Resolution:
2.33 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
9J1M validation report
Macromolecular Entities
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein bL32
Chain IDs:A (auth: 0)
Chain Length:57
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P9WH99
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein bL33A
Chain IDs:B (auth: 1)
Chain Length:55
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P9WH95
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein bL34
Chain IDs:C (auth: 2)
Chain Length:47
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P9WH93
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein bL35
Chain IDs:D (auth: 3)
Chain Length:64
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P9WH91
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein bL36
Chain IDs:E (auth: 4)
Chain Length:37
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P9WH89
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein THX
Chain IDs:F (auth: 7)
Chain Length:24
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
Polymer Type:polyribonucleotide
Molecule:23S rRNA
Chain IDs:G (auth: A)
Chain Length:3138
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
Polymer Type:polyribonucleotide
Molecule:5S rRNA
Chain IDs:H (auth: B)
Chain Length:115
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL2
Chain IDs:I (auth: C)
Chain Length:280
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P9WHA5
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL3
Chain IDs:J (auth: D)
Chain Length:217
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P9WH87
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL4
Chain IDs:K (auth: E)
Chain Length:220
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P9WH85
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL5
Chain IDs:L (auth: F)
Chain Length:187
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P9WH83
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL6
Chain IDs:M (auth: G)
Chain Length:156
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P9WH81
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein bL9
Chain IDs:N (auth: H)
Chain Length:152
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P9WH79
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL13
Chain IDs:O (auth: J)
Chain Length:195
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P9WHE1
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL14
Chain IDs:P (auth: K)
Chain Length:122
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P9WHD9
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL15
Chain IDs:Q (auth: L)
Chain Length:124
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P9WHD7
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL16
Chain IDs:R (auth: M)
Chain Length:124
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P9WHD5
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein bL17
Chain IDs:S (auth: N)
Chain Length:61
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P9WHD3
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL18
Chain IDs:T (auth: O)
Chain Length:122
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P9WHD1
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein bL19
Chain IDs:U (auth: P)
Chain Length:162
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P9WHC9
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein bL20
Chain IDs:V (auth: Q)
Chain Length:135
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P9WHC5
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein bL21
Chain IDs:W (auth: R)
Chain Length:84
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P9WHC3
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL22
Chain IDs:X (auth: S)
Chain Length:93
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P9WHC1
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL23
Chain IDs:Y (auth: T)
Chain Length:100
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P9WHB9
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL24
Chain IDs:Z (auth: U)
Chain Length:3
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P9WHB7
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein bL25
Chain IDs:AA (auth: V)
Chain Length:215
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P9WHB5
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein bL27
Chain IDs:BA (auth: W)
Chain Length:86
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P9WHB3
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein bL28
Chain IDs:CA (auth: X)
Chain Length:64
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P0DV54 Pfam ID:PF00830
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL29
Chain IDs:DA (auth: Y)
Chain Length:77
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P9WHA7
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL30
Chain IDs:EA (auth: Z)
Chain Length:65
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P9WHA3
Polymer Type:polyribonucleotide
Molecule:16S rRNA
Chain IDs:FA (auth: a)
Chain Length:3138
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS3
Chain IDs:GA (auth: c)
Chain Length:280
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P9WH37
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS4
Chain IDs:HA (auth: d)
Chain Length:217
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P9WH35
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS5
Chain IDs:IA (auth: e)
Chain Length:220
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P9WH33
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein bS6
Chain IDs:JA (auth: f)
Chain Length:187
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P9WH31
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS7
Chain IDs:KA (auth: g)
Chain Length:156
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P9WH29
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS8
Chain IDs:LA (auth: h)
Chain Length:152
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P9WH27
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS9
Chain IDs:MA (auth: i)
Chain Length:151
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P9WH25
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS10
Chain IDs:NA (auth: j)
Chain Length:195
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P9WH67
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS11
Chain IDs:OA (auth: k)
Chain Length:122
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P9WH65
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS12
Chain IDs:PA (auth: l)
Chain Length:124
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P9WH63
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS13
Chain IDs:QA (auth: m)
Chain Length:124
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P9WH61
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS14B
Chain IDs:RA (auth: n)
Chain Length:61
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P9WH57
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS15
Chain IDs:SA (auth: o)
Chain Length:122
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P9WH55
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein bS16
Chain IDs:TA (auth: p)
Chain Length:162
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P9WH53
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS17
Chain IDs:UA (auth: q)
Chain Length:135
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P9WH51
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein bS18A
Chain IDs:VA (auth: r)
Chain Length:84
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P9WH49
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS19
Chain IDs:WA (auth: s)
Chain Length:93
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P9WH45
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein bS20
Chain IDs:XA (auth: t)
Chain Length:100
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
UniProt ID:P9WH41
Polymer Type:polyribonucleotide
Molecule:tRNA
Chain IDs:ZA (auth: u)
Chain Length:3
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
Polymer Type:polypeptide(L)
Molecule:Mitochondrial domain of uncharacterised function (DUF1713)
Chain IDs:YA (auth: x)
Chain Length:64
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
Primary Citation
Creation of a macrolide antibiotic against non-tuberculous Mycobacterium using late-stage boron-mediated aglycon delivery.
Sci Adv 11 eadt2352 eadt2352 (2025)
PMID: 40043128 DOI: 10.1126/sciadv.adt2352

Abstact

Non-tuberculous mycobacteria (NTM) is gaining clinical recognition as a recently emerging pulmonary pathogen. Mycobacterium avium complex (MAC), the most common NTM, is the cause of pulmonary MAC disease. Currently, the macrolide azithromycin (AZM) is the standard first-line antibiotic for treatment of the disease. However, the rise of drug-resistant MAC necessitates the development of alternative therapeutics. Here, we present a late-stage boron-mediated aglycon delivery strategy for selective modification of AZM, generating a library of potential anti-MAC drugs designated KU01 to KU13. Screening of KU01 to KU13 revealed that KU13 exhibited enhanced antimicrobial activity against wild-type and macrolide-resistant MAC compared to AZM. Cryo-electron microscopy analysis indicated that the inserted tercyclic moiety of KU13 formed a robust anchor on the bacterial ribosome, creating a binding pocket with base flipping of U2847, potentially bypassing the standard mechanism of macrolide resistance. These results position KU13 as a promising lead for therapeutics against macrolide-resistant MAC.

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Disease

Primary Citation of related structures
9J1M