SMTL ID : 7ohq.1

Nog1-TAP associated immature ribosomal particle population C from S. cerevisiae

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

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain 5: N.177, S.181, A.198, T.200 1 PLIP interactions: 1 interactions with chain 5 Metal complexes: 5:T.200 MG.3: 5 residues within 4Å: Chain g: N.325, A.344, I.346, P.347, E.349 2 PLIP interactions: 2 interactions with chain g Metal complexes: g:A.344, g:I.346

3 x ZN: ZINC ION(Non-covalent)

ZN.2: 6 residues within 4Å: Chain d: C.19, R.21, C.22, C.34, C.37, Y.39 4 PLIP interactions: 4 interactions with chain d Metal complexes: d:C.19, d:C.22, d:C.34, d:C.37 ZN.4: 7 residues within 4Å: Chain j: C.39, F.41, C.42, C.57, C.59, C.60, K.62 4 PLIP interactions: 4 interactions with chain j Metal complexes: j:C.39, j:C.42, j:C.57, j:C.60 ZN.5: 7 residues within 4Å: Chain o: C.6, F.8, C.9, S.11, C.32, R.33, C.36 4 PLIP interactions: 4 interactions with chain o Metal complexes: o:C.6, o:C.9, o:C.32, o:C.36

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

rRNA-processing protein CGR1: D
60S ribosomal protein L2-A: F
60S ribosomal protein L3: G
60S ribosomal protein L4-A: H
60S ribosomal protein L5: I
60S ribosomal protein L6-A: J
60S ribosomal protein L7-A: K
60S ribosomal protein L8-A: L
60S ribosomal protein L9-A: M
60S ribosomal protein L11-A: N
Proteasome-interacting protein CIC1: O
60S ribosomal protein L13-A: P
60S ribosomal protein L14-A: Q
60S ribosomal protein L15-A: R
60S ribosomal protein L16-A: S
60S ribosomal protein L17-A: T
60S ribosomal protein L18-A: U
60S ribosomal protein L19-A: V
60S ribosomal protein L20-A: W
60S ribosomal protein L21-A: X
60S ribosomal protein L22-A: Y
60S ribosomal protein L23-A: Z
Ribosome assembly factor MRT4: 0
60S ribosomal protein L25: 1
60S ribosomal protein L26-A: 2
60S ribosomal protein L27-A: 3
60S ribosomal protein L28: 4
Nucleolar GTP-binding protein 1: 5
60S ribosomal protein L30: 6
60S ribosomal protein L31-A: 7
60S ribosomal protein L32: 8
60S ribosomal protein L33-A: 9
60S ribosomal protein L34-A: a
60S ribosomal protein L35-A: b
60S ribosomal protein L36-A: c
60S ribosomal protein L37-A: d
60S ribosomal protein L38: e
60S ribosomal protein L39: f
Nucleolar GTP-binding protein 2: g
Pescadillo homolog: h
Ribosome biogenesis protein 15: i
60S ribosomal protein L43-A: j
Ribosome biogenesis protein NOP53: k
Ribosome biogenesis protein NSA2: l
Nuclear GTP-binding protein NUG1: m
Ribosome biogenesis protein RLP7: n
Ribosome biogenesis protein RLP24: o
Ribosome biogenesis protein RPF2: p
Regulator of ribosome biosynthesis: q
Ribosome assembly protein 4: r
Eukaryotic translation initiation factor 6: s
UPF0642 protein YBL028C: t

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

D
5

F
A

G
B

H
C

I
D

J
E

K
F

L
G

M
H

N
J

O
K

P
L

Q
M

R
N

S
O

T
P

U
Q

V
R

W
S

X
T

Y
U

Z
V

0
W

1
X

2
Y

3
Z

4
a

5
b

6
c

7
d

8
e

9
f

a
g

b
h

c
i

d
j

e
k

f
l

g
m

h
n

i
o

j
p

k
q

l
r

m
s

n
t

o
u

p
v

q
w

r
x

s
y

t
z

rRNA-processing protein CGR1

60S ribosomal protein L2-A

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 L8-A

60S ribosomal protein L9-A

60S ribosomal protein L11-A

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 L19-A

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

60S ribosomal protein L27-A

60S ribosomal protein L28

Nucleolar GTP-binding protein 1

60S ribosomal protein L30

60S ribosomal protein L31-A

60S ribosomal protein L32

60S ribosomal protein L33-A

60S ribosomal protein L34-A

60S ribosomal protein L35-A

60S ribosomal protein L36-A

60S ribosomal protein L37-A

60S ribosomal protein L38

60S ribosomal protein L39

Nucleolar GTP-binding protein 2

Pescadillo homolog

Ribosome biogenesis protein 15

60S ribosomal protein L43-A

Ribosome biogenesis protein NOP53

Ribosome biogenesis protein NSA2

Nuclear GTP-binding protein NUG1

Ribosome biogenesis protein RLP7

Ribosome biogenesis protein RLP24

Ribosome biogenesis protein RPF2

Regulator of ribosome biosynthesis

Ribosome assembly protein 4

Eukaryotic translation initiation factor 6

UPF0642 protein YBL028C

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