SMTL ID : 6yly.1

pre-60S State NE2 (TAP-Flag-Nop53)

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-mer

Ligands

3 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain R: C.19, C.22, C.34, C.37 3 PLIP interactions: 3 interactions with chain R Metal complexes: R:C.19, R:C.22, R:C.37 ZN.2: 5 residues within 4Å: Chain W: C.39, C.42, C.57, C.59, C.60 5 PLIP interactions: 5 interactions with chain W Metal complexes: W:C.39, W:C.42, W:C.57, W:C.59, W:C.60 ZN.3: 6 residues within 4Å: Chain Y: C.6, C.9, S.11, C.32, R.33, C.36 3 PLIP interactions: 3 interactions with chain Y Metal complexes: Y:C.9, Y:C.32, Y:C.36

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kater, L. et al., Construction of the Central Protuberance and L1 Stalk during 60S Subunit Biogenesis. Mol.Cell (2020)

Release Date

2020-07-29

Peptides

60S ribosomal protein L2-A: A
60S ribosomal protein L28: B
60S ribosomal protein L3: C
Nucleolar GTP-binding protein 1: D
60S ribosomal protein L4-A: E
60S ribosomal protein L30: F
60S ribosomal protein L31-A: G
60S ribosomal protein L6-A: H
60S ribosomal protein L32: I
60S ribosomal protein L7-A: J
60S ribosomal protein L33-A: K
60S ribosomal protein L8-A: L
60S ribosomal protein L34-A: M
Bud site selection protein 20: N
60S ribosomal protein L9-A: O
60S ribosomal protein L35-A: P
60S ribosomal protein L36-A: Q
60S ribosomal protein L37-A: R
60S ribosomal protein L38: S
60S ribosomal protein L13-A: T
60S ribosomal protein L39: U
60S ribosomal protein L14-A: V
60S ribosomal protein L43-A: W
60S ribosomal protein L15-A: X
Ribosome biogenesis protein RLP24: Y
60S ribosomal protein L16-A: Z
60S ribosomal protein L17-A: 0
60S ribosomal protein L18-A: 1
60S ribosomal protein L19-A: 2
Ribosome biogenesis protein NSA2: 3
60S ribosomal protein L20-A: 4
60S ribosomal protein L21-A: 5
60S ribosomal protein L22-A: 6
60S ribosomal protein L23-A: 7
Ribosome assembly factor MRT4: 8
60S ribosomal protein L25: 9
60S ribosomal protein L26-A: a
Eukaryotic translation initiation factor 6: b
60S ribosomal protein L27-A: c
UPF0642 protein YBL028C: d
Proteasome-interacting protein CIC1: g
Pescadillo homolog: h
Ribosome biogenesis protein 15: i
Ribosome biogenesis protein NOP53: j
Ribosome biogenesis protein RLP7: k
Nuclear GTP-binding protein NUG1: m

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
a

C
B

D
b

E
C

F
c

G
d

H
E

I
e

J
F

K
f

L
G

M
g

N
I

O
H

P
h

Q
i

R
j

S
k

T
L

U
l

V
M

W
p

X
N

Y
u

Z
O

0
P

1
Q

2
R

3
r

4
S

5
T

6
U

7
V

8
W

9
X

a
Y

b
y

c
Z

d
z

g
K

h
n

i
o

j
q

k
t

m
s

60S ribosomal protein L2-A

60S ribosomal protein L28

60S ribosomal protein L3

Nucleolar GTP-binding protein 1

60S ribosomal protein L4-A

60S ribosomal protein L30

60S ribosomal protein L31-A

60S ribosomal protein L6-A

60S ribosomal protein L32

60S ribosomal protein L7-A

60S ribosomal protein L33-A

60S ribosomal protein L8-A

60S ribosomal protein L34-A

Bud site selection protein 20

60S ribosomal protein L9-A

60S ribosomal protein L35-A

60S ribosomal protein L36-A

60S ribosomal protein L37-A

60S ribosomal protein L38

60S ribosomal protein L13-A

60S ribosomal protein L39

60S ribosomal protein L14-A

60S ribosomal protein L43-A

60S ribosomal protein L15-A

Ribosome biogenesis protein RLP24

60S ribosomal protein L16-A

60S ribosomal protein L17-A

60S ribosomal protein L18-A

60S ribosomal protein L19-A

Ribosome biogenesis protein NSA2

60S ribosomal protein L20-A

60S ribosomal protein L21-A

60S ribosomal protein L22-A

60S ribosomal protein L23-A

Ribosome assembly factor MRT4

60S ribosomal protein L25

60S ribosomal protein L26-A

Eukaryotic translation initiation factor 6

60S ribosomal protein L27-A

UPF0642 protein YBL028C

Proteasome-interacting protein CIC1

Pescadillo homolog

Ribosome biogenesis protein 15

Ribosome biogenesis protein NOP53

Ribosome biogenesis protein RLP7

Nuclear GTP-binding protein NUG1

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