SMTL ID : 8jav.1

Structure of CRL2APPBP2 bound with the C-degron of MRPL28 (tetramer)

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-4-4-4-4-4-2-mer

Ligands

8 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: C.54, H.89 Chain F: L.53, C.54, H.89 4 PLIP interactions: 2 interactions with chain F, 2 interactions with chain A Metal complexes: F:C.54, F:H.89, A:C.54, A:H.89 ZN.2: 4 residues within 4Å: Chain K: C.53, C.56, C.68, H.82 4 PLIP interactions: 4 interactions with chain K Metal complexes: K:C.53, K:C.56, K:C.68, K:H.82 ZN.3: 5 residues within 4Å: Chain K: C.42, C.45, C.53, H.80, C.83 4 PLIP interactions: 4 interactions with chain K Metal complexes: K:C.42, K:C.45, K:H.80, K:C.83 ZN.4: 4 residues within 4Å: Chain K: C.75, H.77, C.94, D.97 3 PLIP interactions: 3 interactions with chain K Metal complexes: K:C.75, K:H.77, K:C.94 ZN.5: 4 residues within 4Å: Chain L: C.54, H.89 Chain M: C.54, H.89 4 PLIP interactions: 2 interactions with chain L, 2 interactions with chain M Metal complexes: L:C.54, L:H.89, M:C.54, M:H.89 ZN.6: 4 residues within 4Å: Chain U: C.53, C.56, C.68, H.82 4 PLIP interactions: 4 interactions with chain U Metal complexes: U:C.53, U:C.56, U:C.68, U:H.82 ZN.7: 4 residues within 4Å: Chain U: C.42, C.45, H.80, C.83 4 PLIP interactions: 4 interactions with chain U Metal complexes: U:C.42, U:C.45, U:H.80, U:C.83 ZN.8: 4 residues within 4Å: Chain U: C.75, H.77, C.94, D.97 4 PLIP interactions: 4 interactions with chain U Metal complexes: U:C.75, U:H.77, U:C.94, U:D.97

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhao, S. et al., Molecular basis for CRL2APPBP2-mediated C-degron recognition. To Be Published

Release Date

2023-10-18

Peptides

Amyloid protein-binding protein 2: AFLM
Cullin-2: BJNV
Elongin-B: CHOS
Elongin-C: DIPT
MRPL28 C-degron: EGQR
E3 ubiquitin-protein ligase RBX1, N-terminally processed: KU

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

F
B

L
J

M
K

B
E

J
I

N
L

V
U

C
C

H
G

O
M

S
Q

D
D

I
H

P
N

T
T

E
S

G
F

Q
O

R
P

K
R

U
V

Amyloid protein-binding protein 2

Cullin-2

Elongin-B

Elongin-C

MRPL28 C-degron

E3 ubiquitin-protein ligase RBX1, N-terminally processed

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