SMTL ID : 9h90.1

Cryo-EM structure of the Vibrio natrigens 30S ribosomal subunit in complex with spectinomycin.

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY 2.80 Å

Oligo State

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

Ligands

1 x SCM: SPECTINOMYCIN(Non-covalent)

SCM.1: 14 residues within 4Å: Chain G: K.27, G.28 Chain J: C.1073, G.1074, C.1076, G.1078, C.1079, A.1202, C.1203, G.1204, U.1205, G.1397, G.1398, C.1399 3 PLIP interactions: 3 interactions with chain G Hydrophobic interactions: G:K.27, G:K.27 Water bridges: G:G.28

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Raulf, K. et al., The structure of the Vibrio natriegens 70S ribosome in complex with the proline-rich antimicrobial peptide Bac5(1-17). Nucleic Acids Res. (2025)

Release Date

2025-05-21

Peptides

30S ribosomal protein S21: A
30S ribosomal protein S3: B
Small ribosomal subunit protein uS7: C
30S ribosomal protein S15: D
30S ribosomal protein S8: E
30S ribosomal protein S6: F
30S ribosomal protein S5: G
30S ribosomal protein S4: H
30S ribosomal protein S9: I
30S ribosomal protein S20: K
30S ribosomal protein S18: L
30S ribosomal protein S17: M
30S ribosomal protein S16: N
30S ribosomal protein S12: O
30S ribosomal protein S11: P
30S ribosomal protein S14: Q
30S ribosomal protein S10: R

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
u

B
C

C
G

D
o

E
h

F
f

G
e

H
d

I
I

K
t

L
r

M
q

N
p

O
l

P
k

Q
D

R
J

30S ribosomal protein S21

30S ribosomal protein S3

Small ribosomal subunit protein uS7

30S ribosomal protein S15

30S ribosomal protein S8

30S ribosomal protein S6

30S ribosomal protein S5

30S ribosomal protein S4

30S ribosomal protein S9

30S ribosomal protein S20

30S ribosomal protein S18

30S ribosomal protein S17

30S ribosomal protein S16

30S ribosomal protein S12

30S ribosomal protein S11

30S ribosomal protein S14

30S ribosomal protein S10