8rjd.1 | SWISS-MODEL Template Library

SMTL ID : 8rjd.1

Structure of the rabbit 80S ribosome stalled on a 2-TMD rhodopsin intermediate in complex with Sec61-TRAP, open conformation 2

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

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

Ligands

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

5 x ZN: ZINC ION(Non-covalent)

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

Lewis, A.J.O. et al., Structural analysis of the dynamic ribosome-translocon complex. Elife (2024)

Release Date

2024-01-24

Peptides

Protein transport protein Sec61 subunit alpha isoform 1: A
Protein transport protein Sec61 subunit beta: B
Protein transport protein Sec61 subunit gamma: C
Stress-associated endoplasmic reticulum protein: D
Translocon-associated protein subunit alpha: E
Translocon-associated protein subunit beta: F
Translocon-associated protein subunit gamma: G
Translocon-associated protein subunit delta: H
Calnexin: I
Ribosomal protein L8: J
Nascent chain: K
Large ribosomal subunit protein uL4: L
Ribosomal_L18_c domain-containing protein: M
60S ribosomal protein L6: N
Ribosomal Protein uL30: O
60S ribosomal protein L7a: P
60S ribosomal protein L9: Q
60S ribosomal protein L10: R
60S ribosomal protein L11: S
60S ribosomal protein L13: U
60S ribosomal protein L14: V
Ribosomal protein L15: W
60S ribosomal protein L13a: X
uL22: Y
Ribosomal protein L18: Z
Ribosomal protein L19: 0
60S ribosomal protein L18a: 1
60S ribosomal protein L21: 2
Large ribosomal subunit protein eL22: 3
Ribosomal protein L23: 4
Ribosomal protein L24: 5
Large ribosomal subunit protein uL23 N-terminal domain-containing protein: 6
Ribosomal protein L26: 7
60S ribosomal protein L27: 8
60S ribosomal protein L27a: 9
60S ribosomal protein L29: a
Large ribosomal subunit protein eL30: b
60S ribosomal protein L31: c
Ribosomal protein L32: d
60S ribosomal protein L35a: e
60S ribosomal protein L34: f
60S ribosomal protein L35: g
60S ribosomal protein L36: h
Ribosomal protein L37: i
Large ribosomal subunit protein eL38: j
60S ribosomal protein L39-like: k
eL40: l
60S ribosomal protein L41: m
60S ribosomal protein L36a-like: n
60S ribosomal protein L37a: o
60S ribosomal protein L28: q
Ribosomal protein L3: t

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
1

B
2

C
3

D
4

E
5

F
6

G
7

H
8

I
9

J
A

K
B

L
C

M
D

N
E

O
F

P
G

Q
H

R
I

S
J

U
L

V
M

W
N

X
O

Y
P

Z
Q

0
R

1
S

2
T

3
U

4
V

5
W

6
X

7
Y

8
Z

9
a

a
b

b
c

c
d

d
e

e
f

f
g

g
h

h
i

i
j

j
k

k
l

l
m

m
n

n
o

o
p

q
r

t
w

Membrane

We predict this structure to be a membrane protein.
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Protein transport protein Sec61 subunit alpha isoform 1

Protein transport protein Sec61 subunit beta

Protein transport protein Sec61 subunit gamma

Stress-associated endoplasmic reticulum protein

Translocon-associated protein subunit alpha

Translocon-associated protein subunit beta

Translocon-associated protein subunit gamma

Translocon-associated protein subunit delta

Calnexin

Ribosomal protein L8

Nascent chain

Large ribosomal subunit protein uL4

Ribosomal_L18_c domain-containing protein

60S ribosomal protein L6

Ribosomal Protein uL30

60S ribosomal protein L7a

60S ribosomal protein L9

60S ribosomal protein L10

60S ribosomal protein L11

60S ribosomal protein L13

60S ribosomal protein L14

Ribosomal protein L15

60S ribosomal protein L13a

uL22

Ribosomal protein L18

Ribosomal protein L19

60S ribosomal protein L18a

60S ribosomal protein L21

Large ribosomal subunit protein eL22

Ribosomal protein L23

Ribosomal protein L24

Large ribosomal subunit protein uL23 N-terminal domain-containing protein

Ribosomal protein L26

60S ribosomal protein L27

60S ribosomal protein L27a

60S ribosomal protein L29

Large ribosomal subunit protein eL30

60S ribosomal protein L31

Ribosomal protein L32

60S ribosomal protein L35a

60S ribosomal protein L34

60S ribosomal protein L35

60S ribosomal protein L36

Ribosomal protein L37

Large ribosomal subunit protein eL38

60S ribosomal protein L39-like

eL40

60S ribosomal protein L41

60S ribosomal protein L36a-like

60S ribosomal protein L37a

60S ribosomal protein L28

Ribosomal protein L3

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