SMTL ID : 8i7j.1

Yeast 40S-eIF4B - partially open conformation of the 40S head

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

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

MG.1: 3 residues within 4Å: Chain A: A.511, U.512 Chain K: H.133 No protein-ligand interaction detected (PLIP) MG.2: 1 residues within 4Å: Chain A: C.1210 No protein-ligand interaction detected (PLIP)

3 x ZN: ZINC ION(Non-covalent)

ZN.3: 5 residues within 4Å: Chain 1: C.23, C.26, C.74, S.76, C.77 4 PLIP interactions: 4 interactions with chain 1 Metal complexes: 1:C.23, 1:C.26, 1:C.74, 1:C.77 ZN.4: 3 residues within 4Å: Chain 2: G.39, C.40, C.59 1 PLIP interactions: 1 interactions with chain 2 Metal complexes: 2:C.59 ZN.5: 3 residues within 4Å: Chain 6: N.123, C.124, K.141 1 PLIP interactions: 1 interactions with chain 6 Metal complexes: 6:C.124

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Datey, A. et al., Yeast Eukaryotic Initiation Factor 4B Remodels the MRNA Entry Site on the Small Ribosomal Subunit. Biochemistry (2025)

Release Date

2024-02-07

Peptides

40S ribosomal protein S0: B
40S ribosomal protein S1: C
KLLA0F09812p: D
KLLA0D08305p: E
40S ribosomal protein S4: F
KLLA0D10659p: G
40S ribosomal protein S6: H
40S ribosomal protein S7: I
40S ribosomal protein S8: J
KLLA0E23673p: K
KLLA0B08173p: L
KLLA0A10483p: M
40S ribosomal protein S12: N
KLLA0F18040p: O
40S ribosomal protein S14: P
KLLA0F07843p: Q
40S ribosomal protein S16: R
KLLA0B01474p: S
KLLA0B01562p: T
KLLA0A07194p: U
KLLA0F25542p: V
40S ribosomal protein S21: W
KLLA0B07931p: X
KLLA0B11231p: Y
40S ribosomal protein S24: Z
40S ribosomal protein S25: 0
40S ribosomal protein S26: 1
40S ribosomal protein S27: 2
40S ribosomal protein S28: 3
40S ribosomal protein S29: 4
40S ribosomal protein S30: 5
Ubiquitin-40S ribosomal protein S27a: 6
KLLA0E12277p: 7
60S ribosomal protein L41-A: 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
T

V
U

W
V

X
W

Y
X

Z
Y

0
Z

1
a

2
b

3
c

4
d

5
e

6
f

7
g

8
h

40S ribosomal protein S0

40S ribosomal protein S1

KLLA0F09812p

KLLA0D08305p

40S ribosomal protein S4

KLLA0D10659p

40S ribosomal protein S6

40S ribosomal protein S7

40S ribosomal protein S8

KLLA0E23673p

KLLA0B08173p

KLLA0A10483p

40S ribosomal protein S12

KLLA0F18040p

40S ribosomal protein S14

KLLA0F07843p

40S ribosomal protein S16

KLLA0B01474p

KLLA0B01562p

KLLA0A07194p

KLLA0F25542p

40S ribosomal protein S21

KLLA0B07931p

KLLA0B11231p

40S ribosomal protein S24

40S ribosomal protein S25

40S ribosomal protein S26

40S ribosomal protein S27

40S ribosomal protein S28

40S ribosomal protein S29

40S ribosomal protein S30

Ubiquitin-40S ribosomal protein S27a

KLLA0E12277p

60S ribosomal protein L41-A

Related Entries With Identical Sequence