SMTL ID : 6c0f.1

Yeast nucleolar pre-60S ribosomal subunit (state 2)

Coordinates

PDB Format

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-mer

Ligands

3 x ZN: ZINC ION(Non-covalent)

ZN.1: 6 residues within 4Å: Chain G: I.10, C.15, C.28, N.30, C.38, C.43 4 PLIP interactions: 4 interactions with chain G Metal complexes: G:C.15, G:C.28, G:C.38, G:C.43 ZN.2: 4 residues within 4Å: Chain 3: C.19, C.22, C.34, C.37 4 PLIP interactions: 4 interactions with chain 3 Metal complexes: 3:C.19, 3:C.22, 3:C.34, 3:C.37 ZN.3: 5 residues within 4Å: Chain c: C.6, C.9, S.11, C.32, C.36 4 PLIP interactions: 4 interactions with chain c Metal complexes: c:C.6, c:C.9, c:C.32, c:C.36

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sanghai, Z.A. et al., Modular assembly of the nucleolar pre-60S ribosomal subunit. Nature (2018)

Release Date

2018-03-14

Peptides

Ribosome biogenesis protein NSA1: D
60S ribosomal protein L3: E
60S ribosomal protein L4-A: F
Protein MAK16: G
60S ribosomal protein L6-A: H
60S ribosomal protein L7-A: I
60S ribosomal protein L8-A: J
Ribosome production factor 1: K
Proteasome-interacting protein CIC1: L
60S ribosomal protein L13-A: M
60S ribosomal protein L14-A: N
60S ribosomal protein L15-A: O
60S ribosomal protein L16-A: P
60S ribosomal protein L17-A: Q
60S ribosomal protein L18-A: R
60S ribosomal protein L20-A: S
60S ribosomal protein L23-A: T
Nucleolar GTP-binding protein 1: U
60S ribosomal protein L26-A: V
Nucleolar protein 16: W
Ribosomal RNA-processing protein 14: X
Ribosome biogenesis protein BRX1: Y
60S ribosomal protein L32: Z
60S ribosomal protein L33-A: 0
60S ribosomal protein L35-A: 1
60S ribosomal protein L36-A: 2
60S ribosomal protein L37-A: 3
Brx1-associated peptide: 4
rRNA-processing protein EBP2: 5
Pescadillo homolog: 6
Ribosome biogenesis protein 15: 7
ATP-dependent RNA helicase HAS1: 8
Protein MAK11: 9
Ribosome biogenesis protein ERB1: a
Ribosome biogenesis protein RLP7: b
Ribosome biogenesis protein RLP24: c
Ribosome biogenesis protein SSF1: d
Ribosomal RNA-processing protein 15: e
Eukaryotic translation initiation factor 6: f
Ribosomal RNA-processing protein 1: g

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

D
A

E
B

F
C

G
D

H
E

I
F

J
G

K
I

L
K

M
L

N
M

O
N

P
O

Q
P

R
Q

S
S

T
V

U
W

V
Y

W
7

X
8

Y
b

Z
e

0
f

1
h

2
i

3
j

4
x

5
m

6
n

7
o

8
p

9
q

a
s

b
t

c
u

d
v

e
w

f
y

g
z

Ribosome biogenesis protein NSA1

60S ribosomal protein L3

60S ribosomal protein L4-A

Protein MAK16

60S ribosomal protein L6-A

60S ribosomal protein L7-A

60S ribosomal protein L8-A

Ribosome production factor 1

Proteasome-interacting protein CIC1

60S ribosomal protein L13-A

60S ribosomal protein L14-A

60S ribosomal protein L15-A

60S ribosomal protein L16-A

60S ribosomal protein L17-A

60S ribosomal protein L18-A

60S ribosomal protein L20-A

60S ribosomal protein L23-A

Nucleolar GTP-binding protein 1

60S ribosomal protein L26-A

Nucleolar protein 16

Ribosomal RNA-processing protein 14

Ribosome biogenesis protein BRX1

60S ribosomal protein L32

60S ribosomal protein L33-A

60S ribosomal protein L35-A

60S ribosomal protein L36-A

60S ribosomal protein L37-A

Brx1-associated peptide

rRNA-processing protein EBP2

Pescadillo homolog

Ribosome biogenesis protein 15

ATP-dependent RNA helicase HAS1

Protein MAK11

Ribosome biogenesis protein ERB1

Ribosome biogenesis protein RLP7

Ribosome biogenesis protein RLP24

Ribosome biogenesis protein SSF1

Ribosomal RNA-processing protein 15

Eukaryotic translation initiation factor 6

Ribosomal RNA-processing protein 1

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