SMTL ID : 7nad.1

State E2 nucleolar 60S ribosomal biogenesis intermediate - Spb4 local refinement model

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-mer

Ligands

1 x ZN: ZINC ION(Non-covalent)

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

RRP17 isoform 1: C
NOC2 isoform 1: D
60S ribosomal protein L3: E
RPL8A isoform 1: F
NOC3 isoform 1: G
60S ribosomal protein L17-A: H
60S ribosomal protein L19-A: I
60S ribosomal protein L22-A: J
60S ribosomal protein L23-A: K
60S ribosomal protein L25: L
60S ribosomal protein L27-A: M
Nucleolar GTP-binding protein 1: N
60S ribosomal protein L30: O
60S ribosomal protein L31-A: P
60S ribosomal protein L34-A: Q
RPL38 isoform 1: R
Ribosome biogenesis protein ERB1: S
Pescadillo homolog: T
YTM1 isoform 1: U
RLP7 isoform 1: V
Ribosome biogenesis protein RLP24: W
SPB1 isoform 1: X
60S ribosomal protein L37-A: Y
SPB4 isoform 1: Z

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

C
5

D
8

E
B

F
G

G
I

H
P

I
R

J
U

K
V

L
X

M
Z

N
b

O
c

P
d

Q
g

R
k

S
m

T
n

U
p

V
t

W
u

X
w

Y
j

Z
x

RRP17 isoform 1

NOC2 isoform 1

60S ribosomal protein L3

RPL8A isoform 1

NOC3 isoform 1

60S ribosomal protein L17-A

60S ribosomal protein L19-A

60S ribosomal protein L22-A

60S ribosomal protein L23-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

RPL38 isoform 1

Ribosome biogenesis protein ERB1

Pescadillo homolog

YTM1 isoform 1

RLP7 isoform 1

Ribosome biogenesis protein RLP24

SPB1 isoform 1

60S ribosomal protein L37-A

SPB4 isoform 1

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