SMTL ID : 8cgk.1

Lincomycin and Avilamycin bound to the 50S subunit

Coordinates
PDB Format
Method
ELECTRON MICROSCOPY 1.64 Å
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-mer
Ligands
1 x ZN: ZINC ION(Non-covalent)
1 x ACT: ACETATE ION(Non-functional Binders)
1 x 3QB: LINCOMYCIN(Non-functional Binders)
1 x 6UQ: (2R,3S,4R,6S)-4-hydroxy-6-{[(2R,3aR,4R,4'R,5'S,6S,6'R,7aR)-4'-hydroxy-6-{[(2S,3R,4R,5S,6R)-3-hydroxy-2-{[(2R,3S,4S,5S,6S)-4-hydroxy-6-({(2R,3aS,3a'R,6S,6'R,7R,7'R,7aR,7a'R)-7'-hydroxy-7'-[(1S)-1-hydroxyethyl]-6'-methyl-7-[(2-methylpropanoyl)oxy]octahydro-4H-2,4'-spirobi[[1,3]dioxolo[4,5-c]pyran]-6-yl}oxy)-5-methoxy-2-(methoxymethyl)tetrahydro-2H-pyran-3-yl]oxy}-5-methoxy-6-methyltetrahydro-2H-pyran-4-yl]oxy}-4,6',7a-trimethyloctahydro-4H-spiro[1,3-dioxolo[4,5-c]pyran-2,2'-pyran]-5'-yl]oxy}-2-methyltetrahydro-2H-pyran-3-yl 3,5-dichloro-4-hydroxy-2-methoxy-6-methylbenzoate (non-preferred name)(Non-covalent)
260 x MG: MAGNESIUM ION(Non-functional Binders)(Non-covalent)
81 x K: POTASSIUM ION(Non-functional Binders)(Non-covalent)
Links
RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP
Citation
Paternoga, H. et al., Structural conservation of antibiotic interaction with ribosomes. Nat.Struct.Mol.Biol. (2023)
Release Date
2023-07-19
Peptides
Large ribosomal subunit protein bL33: A
Large ribosomal subunit protein bL34: B
Large ribosomal subunit protein bL35: C
Large ribosomal subunit protein bL36A: D
Large ribosomal subunit protein uL2: G
Large ribosomal subunit protein uL3: H
Large ribosomal subunit protein uL4: I
Large ribosomal subunit protein uL6: J
Large ribosomal subunit protein bL9: K
Large ribosomal subunit protein uL13: L
Large ribosomal subunit protein uL14: M
50S ribosomal protein L15: N
Large ribosomal subunit protein uL16: O
Large ribosomal subunit protein bL17: P
Large ribosomal subunit protein bL19: Q
Large ribosomal subunit protein bL20: R
Large ribosomal subunit protein bL21: S
Large ribosomal subunit protein uL22: T
Large ribosomal subunit protein uL23: U
Large ribosomal subunit protein uL24: V
50S ribosomal protein L25: W
Large ribosomal subunit protein bL27: X
Large ribosomal subunit protein bL28: Y
Large ribosomal subunit protein uL29: Z
Large ribosomal subunit protein uL30: 0
Large ribosomal subunit protein bL32: 1
SMTL:PDB
SMTL Chain Id:
PDB Chain Id:
A
0
B
1
C
2
D
3
G
c
H
d
I
e
J
g
K
h
L
i
M
j
N
k
O
l
P
m
Q
o
R
p
S
q
T
r
U
s
V
t
W
u
X
v
Y
w
Z
x
0
y
1
z

Large ribosomal subunit protein bL33

Large ribosomal subunit protein bL34

Large ribosomal subunit protein bL35

Large ribosomal subunit protein bL36A

Large ribosomal subunit protein uL2

Large ribosomal subunit protein uL3

Large ribosomal subunit protein uL4

Large ribosomal subunit protein uL6

Large ribosomal subunit protein bL9

Large ribosomal subunit protein uL13

Large ribosomal subunit protein uL14

50S ribosomal protein L15

Large ribosomal subunit protein uL16

Large ribosomal subunit protein bL17

Large ribosomal subunit protein bL19

Large ribosomal subunit protein bL20

Large ribosomal subunit protein bL21

Large ribosomal subunit protein uL22

Large ribosomal subunit protein uL23

Large ribosomal subunit protein uL24

50S ribosomal protein L25

Large ribosomal subunit protein bL27

Large ribosomal subunit protein bL28

Large ribosomal subunit protein uL29

Large ribosomal subunit protein uL30

Large ribosomal subunit protein bL32

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1b75.1 | 1d6k.1 | 1dfu.1 | 2j28.1 | 3bbx.1 | 3j45.1 | 3j46.1 | 3j5l.1 | 3j7z.1 | 3j8g.1 | 3j9y.1 | 3j9z.1 | 3ja1.1 | 3jbu.1 | 3jbv.1 | 3jcd.1 | 3jce.1 | 3jcj.1 | 3jcn.1 | 487d.1 | 4csu.1 | 4peb.1 | 4pec.1 | 4tom.1 | 4too.1 | 4tov.1 | 4tox.1 | 4tp1.1 | 4tp3.1 | 4tp5.1  more...