SMTL ID : 8cvr.1

Human 20S proteasome with MG-132

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

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

Ligands

6 x LDZ: N-[(benzyloxy)carbonyl]-L-leucyl-N-[(2S)-4-methyl-1-oxopentan-2-yl]-L-leucinamide(Non-covalent)

LDZ.1: 19 residues within 4Å: Chain H: T.1, R.19, T.20, T.21, T.22, N.28, K.33, R.45, S.46, G.47, S.48, A.49, T.52, Q.53, M.95 Chain I: Y.114, S.118, T.119, D.120 14 PLIP interactions: 12 interactions with chain H, 2 interactions with chain I Hydrophobic interactions: H:T.1, H:T.20, H:T.22, H:N.28, H:T.52, I:Y.114, I:D.120 Hydrogen bonds: H:T.1, H:T.21, H:T.21, H:T.21, H:T.22, H:G.47, H:A.49 LDZ.2: 14 residues within 4Å: Chain I: T.1, A.20, T.21, E.22, K.33, G.45, G.47, T.48, A.49, T.52 Chain J: R.99, L.126, I.127, C.129 11 PLIP interactions: 2 interactions with chain J, 9 interactions with chain I Hydrophobic interactions: J:L.126, J:I.127, I:A.20, I:K.33, I:T.48 Hydrogen bonds: I:T.1, I:T.21, I:T.21, I:G.47, I:G.47, I:A.49 LDZ.3: 15 residues within 4Å: Chain L: T.1, R.19, A.20, T.21, A.22, A.27, K.33, M.45, A.46, G.47, G.48, A.49, C.52 Chain M: P.154, V.155 12 PLIP interactions: 9 interactions with chain L, 3 interactions with chain M Hydrophobic interactions: L:T.1, L:A.20, L:A.27, M:P.154, M:P.154, M:V.155 Hydrogen bonds: L:T.21, L:T.21, L:K.33, L:G.47, L:G.47, L:A.49 LDZ.4: 17 residues within 4Å: Chain V: T.1, R.19, T.20, T.21, T.22, K.33, R.45, S.46, G.47, S.48, A.49, T.52, M.95 Chain W: Y.114, P.115, H.116, S.118 13 PLIP interactions: 9 interactions with chain V, 4 interactions with chain W Hydrophobic interactions: V:T.22, V:K.33, V:T.52, W:Y.114, W:Y.114, W:P.115 Hydrogen bonds: V:R.19, V:T.21, V:T.21, V:K.33, V:G.47, V:A.49 pi-Stacking: W:Y.114 LDZ.5: 15 residues within 4Å: Chain W: T.1, A.20, T.21, A.27, K.33, G.45, A.46, G.47, T.48, A.49, T.52, D.53 Chain X: R.99, L.126, I.127 12 PLIP interactions: 10 interactions with chain W, 2 interactions with chain X Hydrophobic interactions: W:A.20, W:A.27, W:K.33, W:T.52, X:L.126, X:I.127 Hydrogen bonds: W:T.21, W:T.21, W:K.33, W:G.47, W:G.47, W:A.49 LDZ.6: 15 residues within 4Å: Chain 0: D.153, P.154, S.157, Y.158, Q.159 Chain Z: T.1, A.20, T.21, A.22, S.28, V.31, M.45, A.46, G.47, A.49 10 PLIP interactions: 9 interactions with chain Z, 1 interactions with chain 0 Hydrophobic interactions: Z:S.28, Z:V.31, Z:V.31, Z:A.49, 0:Q.159 Hydrogen bonds: Z:T.21, Z:T.21, Z:G.47, Z:G.47, Z:A.49

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhao, J. et al., Structural insights into the human PA28-20S proteasome enabled by efficient tagging and purification of endogenous proteins. Proc.Natl.Acad.Sci.USA (2022)

Release Date

2022-11-02

Peptides

Proteasome subunit alpha type-6: AO
Proteasome subunit alpha type-2: BP
Proteasome subunit alpha type-4: CQ
Proteasome subunit alpha type-7: DR
Proteasome subunit alpha type-5: ES
Proteasome subunit alpha type-1: FT
Proteasome subunit alpha type-3: GU
Proteasome subunit beta type-6: HV
Proteasome subunit beta type-7: IW
Proteasome subunit beta type-3: JX
Proteasome subunit beta type-2: KY
Proteasome subunit beta type-5: LZ
Proteasome subunit beta type-1: M0
Proteasome subunit beta type-4: N1

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

O
O

B
B

P
P

C
C

Q
Q

D
D

R
R

E
E

S
S

F
F

T
T

G
G

U
U

H
H

V
V

I
I

W
W

J
J

X
X

K
K

Y
Y

L
L

Z
Z

M
M

0
a

N
N

1
b

Proteasome subunit alpha type-6

Proteasome subunit alpha type-2

Proteasome subunit alpha type-4

Proteasome subunit alpha type-7

Proteasome subunit alpha type-5

Proteasome subunit alpha type-1

Proteasome subunit alpha type-3

Proteasome subunit beta type-6

Proteasome subunit beta type-7

Proteasome subunit beta type-3

Proteasome subunit beta type-2

Proteasome subunit beta type-5

Proteasome subunit beta type-1

Proteasome subunit beta type-4

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