SMTL ID : 8vrl.1

Structure of Mycobacterium smegmatis 50S ribosomal subunit bound to HflX and chloramphenicol:50S-HflX-A-Clm

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-mer

Ligands

1 x GCP: PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER(Non-covalent)

GCP.1: 20 residues within 4Å: Chain C: T.254, N.255, A.256, G.257, K.258, S.259, S.260, V.272, E.273, N.274, F.277, A.278, T.279, V.301, N.369, K.370, A.373, V.392, S.393, A.394 18 PLIP interactions: 18 interactions with chain C Hydrogen bonds: C:N.255, C:A.256, C:G.257, C:K.258, C:S.259, C:S.259, C:S.260, C:E.273, C:F.277, C:A.278, C:T.279, C:T.279, C:T.279, C:K.370, C:K.370, C:A.373, C:V.392, C:A.394

1 x CLM: CHLORAMPHENICOL(Non-covalent)

CLM.2: 11 residues within 4Å: Chain 5: G.2285, A.2286, A.2675, C.2676, A.2727, U.2728, G.2729, U.2730 Chain C: G.197, R.201, G.202 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Majumdar, S. et al., HflX-mediated drug resistance through ribosome splitting and rRNA disordering in mycobacteria. Proc.Natl.Acad.Sci.USA (2025)

Release Date

2025-02-19

Peptides

50S ribosomal protein L30: A
50S Ribosomal Protein L27: B
GTPase HflX: C
50S ribosomal protein L2: E
50S ribosomal protein L3: F
Large ribosomal subunit protein uL4: G
50S ribosomal protein L6: H
50S ribosomal protein L9: I
Large ribosomal subunit protein uL13: J
50S ribosomal protein L14: K
50S ribosomal protein L15: L
Large ribosomal subunit protein uL16: M
50S ribosomal protein L17: N
Large ribosomal subunit protein uL18: O
50S ribosomal protein L19: P
Large ribosomal subunit protein bL20: Q
Large ribosomal subunit protein bL21: R
Large ribosomal subunit protein uL22: S
Large ribosomal subunit protein uL23: T
50S ribosomal protein L24: U
50S ribosomal protein L25: V
50S ribosomal protein L27: W
Large ribosomal subunit protein bL28: X
50S ribosomal protein L29: Y
50S ribosomal protein L32: Z
50S Ribosomal Protein L33: 0
50S ribosomal protein L34: 1
50S ribosomal protein L35: 2
50S ribosomal protein L36: 3
50S Ribosomal Protein L31: 4

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
2

B
3

C
4

E
C

F
D

G
E

H
G

I
H

J
K

K
L

L
M

M
N

N
O

O
P

P
Q

Q
R

R
S

S
T

T
U

U
V

V
W

W
X

X
Y

Y
Z

Z
b

0
c

1
d

2
e

3
f

4
g

50S ribosomal protein L30

50S Ribosomal Protein L27

GTPase HflX

50S ribosomal protein L2

50S ribosomal protein L3

Large ribosomal subunit protein uL4

50S ribosomal protein L6

50S ribosomal protein L9

Large ribosomal subunit protein uL13

50S ribosomal protein L14

50S ribosomal protein L15

Large ribosomal subunit protein uL16

50S ribosomal protein L17

Large ribosomal subunit protein uL18

50S ribosomal protein L19

Large ribosomal subunit protein bL20

Large ribosomal subunit protein bL21

Large ribosomal subunit protein uL22

Large ribosomal subunit protein uL23

50S ribosomal protein L24

50S ribosomal protein L25

50S ribosomal protein L27

Large ribosomal subunit protein bL28

50S ribosomal protein L29

50S ribosomal protein L32

50S Ribosomal Protein L33

50S ribosomal protein L34

50S ribosomal protein L35

50S ribosomal protein L36

50S Ribosomal Protein L31

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