SMTL ID : 7r72.1

State E1 nucleolar 60S ribosome biogenesis intermediate - Spb4 local model

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-mer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain O: C.44, C.47, C.81, C.84 4 PLIP interactions: 4 interactions with chain O Metal complexes: O:C.44, O:C.47, O:C.81, O:C.84

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cruz, V.E. et al., Sequence-specific remodeling of a topologically complex RNP substrate by Spb4. Nat.Struct.Mol.Biol. (2022)

Release Date

2022-11-09

Peptides

Nucleolar complex protein 2: C
60S ribosomal protein L3: D
60S ribosomal protein L8-A: E
Nucleolar complex-associated protein 3: F
60S ribosomal protein L17-A: G
60S ribosomal protein L19-A: H
60S ribosomal protein L22-A: I
60S ribosomal protein L25: J
60S ribosomal protein L27-A: K
Nucleolar GTP-binding protein 1: L
60S ribosomal protein L30: M
60S ribosomal protein L31-A: N
60S ribosomal protein L34-A: O
60S ribosomal protein L37-A: P
60S ribosomal protein L38: Q
Ribosome biogenesis protein ERB1: R
Pescadillo homolog: S
Ribosome biogenesis protein YTM1: T
Ribosome biogenesis protein RLP7: U
Ribosome biogenesis protein RLP24: V
27S pre-rRNA (guanosine(2922)-2'-O)-methyltransferase: W
ATP-dependent rRNA helicase SPB4: X

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

C
8

D
B

E
G

F
I

G
P

H
R

I
U

J
X

K
Z

L
b

M
c

N
d

O
g

P
j

Q
k

R
m

S
n

T
p

U
t

V
u

W
w

X
x

Nucleolar complex protein 2

60S ribosomal protein L3

60S ribosomal protein L8-A

Nucleolar complex-associated protein 3

60S ribosomal protein L17-A

60S ribosomal protein L19-A

60S ribosomal protein L22-A

60S ribosomal protein L25

60S ribosomal protein L27-A

Nucleolar GTP-binding protein 1

60S ribosomal protein L30

60S ribosomal protein L31-A

60S ribosomal protein L34-A

60S ribosomal protein L37-A

60S ribosomal protein L38

Ribosome biogenesis protein ERB1

Pescadillo homolog

Ribosome biogenesis protein YTM1

Ribosome biogenesis protein RLP7

Ribosome biogenesis protein RLP24

27S pre-rRNA (guanosine(2922)-2'-O)-methyltransferase

ATP-dependent rRNA helicase SPB4

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