SMTL ID : 7oht.1

Nog1-TAP associated immature ribosomal particles from S. cerevisiae after rpL2 expression shut down, population A

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-mer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 5 residues within 4Å: Chain R: N.177, Q.195, P.196, Y.197, T.200 2 PLIP interactions: 2 interactions with chain R Metal complexes: R:Q.195, R:T.200 MG.2: 5 residues within 4Å: Chain U: P.324, N.325, I.346, P.347, E.349 No protein-ligand interaction detected (PLIP)

1 x ZN: ZINC ION(Non-covalent)

ZN.3: 7 residues within 4Å: Chain W: C.6, F.8, C.9, S.11, F.31, C.32, C.36 3 PLIP interactions: 3 interactions with chain W Metal complexes: W:C.6, W:C.9, W:C.32

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Poll, G. et al., Analysis of subunit folding contribution of three yeast large ribosomal subunit proteins required for stabilisation and processing of intermediate nuclear rRNA precursors. Plos One (2021)

Release Date

2021-11-03

Peptides

60S ribosomal protein L3: D
60S ribosomal protein L4-A: E
60S ribosomal protein L5: F
60S ribosomal protein L6-A: G
60S ribosomal protein L7-A: H
60S ribosomal protein L9-A: I
60S ribosomal protein L11-A: J
60S ribosomal protein L14-A: K
60S ribosomal protein L16-A: L
60S ribosomal protein L18-A: M
60S ribosomal protein L20-A: N
60S ribosomal protein L21-A: O
60S ribosomal protein L23-A: P
Ribosome assembly factor MRT4: Q
Nucleolar GTP-binding protein 1: R
60S ribosomal protein L32: S
60S ribosomal protein L33-A: T
Nucleolar GTP-binding protein 2: U
Ribosome biogenesis protein NSA2: V
Ribosome biogenesis protein RLP24: W
Ribosome biogenesis protein RPF2: X
Regulator of ribosome biosynthesis: Y
Ribosome assembly protein 4: Z
Eukaryotic translation initiation factor 6: 0

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

D
B

E
C

F
D

G
E

H
F

I
H

J
J

K
M

L
O

M
Q

N
S

O
T

P
V

Q
W

R
b

S
e

T
f

U
m

V
r

W
u

X
v

Y
w

Z
x

0
y

60S ribosomal protein L3

60S ribosomal protein L4-A

60S ribosomal protein L5

60S ribosomal protein L6-A

60S ribosomal protein L7-A

60S ribosomal protein L9-A

60S ribosomal protein L11-A

60S ribosomal protein L14-A

60S ribosomal protein L16-A

60S ribosomal protein L18-A

60S ribosomal protein L20-A

60S ribosomal protein L21-A

60S ribosomal protein L23-A

Ribosome assembly factor MRT4

Nucleolar GTP-binding protein 1

60S ribosomal protein L32

60S ribosomal protein L33-A

Nucleolar GTP-binding protein 2

Ribosome biogenesis protein NSA2

Ribosome biogenesis protein RLP24

Ribosome biogenesis protein RPF2

Regulator of ribosome biosynthesis

Ribosome assembly protein 4

Eukaryotic translation initiation factor 6

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