SMTL ID : 8jas.1

Structure of CRL2APPBP2 bound with RxxGPAA degron (tetramer)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-4-4-4-4-3-2-mer

Ligands

8 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.54, H.89 Chain F: 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 4 PLIP interactions: 4 interactions with chain K Metal complexes: K:C.75, K:H.77, K:C.94, K:D.97 ZN.5: 5 residues within 4Å: Chain L: C.54, H.89, V.91 Chain M: C.54, H.89 4 PLIP interactions: 2 interactions with chain M, 2 interactions with chain L Metal complexes: M:C.54, M:H.89, L:C.54, L:H.89 ZN.6: 4 residues within 4Å: Chain S: C.53, C.56, C.68, H.82 4 PLIP interactions: 4 interactions with chain S Metal complexes: S:C.53, S:C.56, S:C.68, S:H.82 ZN.7: 4 residues within 4Å: Chain S: C.42, C.45, H.80, C.83 4 PLIP interactions: 4 interactions with chain S Metal complexes: S:C.42, S:C.45, S:H.80, S:C.83 ZN.8: 4 residues within 4Å: Chain S: C.75, H.77, C.94, D.97 4 PLIP interactions: 4 interactions with chain S Metal complexes: S:C.75, S:H.77, S:C.94, S:D.97

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhao, S. et al., Molecular basis for C-degron recognition by CRL2 APPBP2 ubiquitin ligase. Proc.Natl.Acad.Sci.USA (2023)

Release Date

2023-10-18

Peptides

Amyloid protein-binding protein 2: AFLM
Cullin-2: BJNT
Elongin-B: CHOQ
Elongin-C: DIPR
SUMO-XP_211896+AA C-degron: EGU
E3 ubiquitin-protein ligase RBX1, N-terminally processed: KS

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

F
B

L
J

M
K

B
E

J
I

N
L

T
U

C
C

H
G

O
M

Q
Q

D
D

I
H

P
N

R
T

E
S

G
F

U
O

K
R

S
V

Amyloid protein-binding protein 2

Cullin-2

Elongin-B

Elongin-C

SUMO-XP_211896+AA C-degron

E3 ubiquitin-protein ligase RBX1, N-terminally processed

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