SMTL ID : 6zv6.1

Human RIO1(kd)-StHA late pre-40S particle, structural state B (post 18S rRNA cleavage)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

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

Ligands

3 x MG: MAGNESIUM ION(Non-functional Binders)(Non-covalent)

MG.1: 1 residues within 4Å: Chain A: U.1839 No protein-ligand interaction detected (PLIP) MG.2: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.5: 4 residues within 4Å: Chain 8: N.329, D.341 Chain A: G.1639 Ligands: ADP.4 No protein-ligand interaction detected (PLIP)

1 x ZN: ZINC ION(Non-covalent)

ZN.3: 5 residues within 4Å: Chain U: C.23, N.25, C.26, C.74, C.77 4 PLIP interactions: 4 interactions with chain U Metal complexes: U:C.23, U:C.26, U:C.74, U:C.77

1 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.4: 17 residues within 4Å: Chain 8: S.187, G.189, K.190, E.191, A.192, V.194, K.208, P.265, S.278, F.279, I.280, L.289, N.329, L.331, I.340, D.341 Ligands: MG.5 7 PLIP interactions: 7 interactions with chain 8 Hydrogen bonds: 8:G.189, 8:K.190, 8:E.191, 8:A.192, 8:I.280 Salt bridges: 8:K.208, 8:K.208

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Plassart, L. et al., The final step of 40S ribosomal subunit maturation is controlled by a dual key lock. Elife (2021)

Release Date

2021-05-12

Peptides

40S ribosomal protein SA: B
40S ribosomal protein S3a: C
40S ribosomal protein S2: D
40S ribosomal protein S3: E
40S ribosomal protein S4, X isoform: F
40S ribosomal protein S5: G
40S ribosomal protein S6: H
40S ribosomal protein S7: I
40S ribosomal protein S8: J
40S ribosomal protein S9: K
40S ribosomal protein S10: L
40S ribosomal protein S11: M
40S ribosomal protein S12: N
40S ribosomal protein S13: O
40S ribosomal protein S14: P
40S ribosomal protein S15: Q
40S ribosomal protein S16: R
40S ribosomal protein S17: S
40S ribosomal protein S18: T
40S ribosomal protein S26: U
40S ribosomal protein S20: V
40S ribosomal protein S21: W
40S ribosomal protein S15a: X
40S ribosomal protein S23: Y
40S ribosomal protein S24: Z
40S ribosomal protein S25: 0
40S ribosomal protein S27: 1
40S ribosomal protein S28: 2
40S ribosomal protein S29: 3
40S ribosomal protein S30: 4
Ubiquitin-40S ribosomal protein S27a: 5
Receptor of activated protein C kinase 1: 6
40S ribosomal protein S19: 7
Serine/threonine-protein kinase RIO1: 8

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

B
A

C
B

D
C

E
D

F
E

G
F

H
G

I
H

J
I

K
J

L
K

M
L

N
M

O
N

P
O

Q
P

R
Q

S
R

T
S

U
a

V
U

W
V

X
W

Y
X

Z
Y

0
Z

1
b

2
c

3
d

4
e

5
f

6
g

7
T

8
h

40S ribosomal protein SA

40S ribosomal protein S3a

40S ribosomal protein S2

40S ribosomal protein S3

40S ribosomal protein S4, X isoform

40S ribosomal protein S5

40S ribosomal protein S6

40S ribosomal protein S7

40S ribosomal protein S8

40S ribosomal protein S9

40S ribosomal protein S10

40S ribosomal protein S11

40S ribosomal protein S12

40S ribosomal protein S13

40S ribosomal protein S14

40S ribosomal protein S15

40S ribosomal protein S16

40S ribosomal protein S17

40S ribosomal protein S18

40S ribosomal protein S26

40S ribosomal protein S20

40S ribosomal protein S21

40S ribosomal protein S15a

40S ribosomal protein S23

40S ribosomal protein S24

40S ribosomal protein S25

40S ribosomal protein S27

40S ribosomal protein S28

40S ribosomal protein S29

40S ribosomal protein S30

Ubiquitin-40S ribosomal protein S27a

Receptor of activated protein C kinase 1

40S ribosomal protein S19

Serine/threonine-protein kinase RIO1

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