SMTL ID : 9bw4.1

TXNL1-bound proteasome

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-2-2-2-2-2-2-2-mer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain I: H.113, H.115, D.126 Chain M: H.289 5 PLIP interactions: 4 interactions with chain I, 1 interactions with chain M Metal complexes: I:H.113, I:H.115, I:D.126, I:D.126, M:H.289

3 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.2: 21 residues within 4Å: Chain N: D.176, V.177, G.178, C.180, P.218, G.219, T.220, G.221, K.222, T.223, L.224, N.322, I.354, H.358, G.382, A.383, R.386 Chain O: D.317, R.343, R.346 Ligands: MG.3 19 PLIP interactions: 15 interactions with chain N, 4 interactions with chain O Hydrogen bonds: N:G.178, N:G.178, N:G.219, N:T.220, N:G.221, N:K.222, N:T.223, N:L.224, N:N.322, N:G.382, N:A.383, N:R.386, N:R.386 Salt bridges: N:K.222, N:K.222, O:R.343, O:R.343, O:R.343, O:R.346 ATP.4: 20 residues within 4Å: Chain O: D.186, I.187, G.188, L.190, P.227, G.229, T.230, G.231, K.232, T.233, L.234, D.285, I.364, H.368, A.393, K.396 Chain P: D.281, R.307, R.310 Ligands: MG.5 17 PLIP interactions: 13 interactions with chain O, 4 interactions with chain P Hydrogen bonds: O:G.188, O:G.188, O:G.229, O:T.230, O:G.231, O:K.232, O:T.233, O:T.233, O:L.234, O:K.396, O:K.396 Salt bridges: O:K.232, O:K.232, P:R.307, P:R.307, P:R.307, P:R.310 ATP.6: 22 residues within 4Å: Chain P: M.150, I.151, G.152, L.154, P.192, G.193, T.194, G.195, K.196, T.197, L.198, D.249, E.250, N.296, I.328, H.332, G.356, A.357, K.360 Chain Q: D.297, R.323 Ligands: MG.7 11 PLIP interactions: 3 interactions with chain Q, 8 interactions with chain P Salt bridges: Q:R.323, Q:R.323, Q:R.323 Hydrogen bonds: P:G.152, P:G.152, P:G.195, P:G.195, P:T.197, P:T.197, P:L.198, P:G.356

5 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 2 residues within 4Å: Chain N: T.223 Ligands: ATP.2 1 PLIP interactions: 1 interactions with chain N Metal complexes: N:T.223 MG.5: 3 residues within 4Å: Chain O: K.232, T.233 Ligands: ATP.4 1 PLIP interactions: 1 interactions with chain O Metal complexes: O:T.233 MG.7: 4 residues within 4Å: Chain P: T.197, D.249, E.250 Ligands: ATP.6 No protein-ligand interaction detected (PLIP) MG.9: 4 residues within 4Å: Chain Q: T.213, R.229, D.265 Ligands: ADP.8 1 PLIP interactions: 1 interactions with chain Q Metal complexes: Q:T.213 MG.11: 5 residues within 4Å: Chain R: G.179, K.180, T.181, L.182 Ligands: ADP.10 No protein-ligand interaction detected (PLIP)

3 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.8: 18 residues within 4Å: Chain Q: I.167, G.168, M.170, P.207, P.208, G.209, C.210, G.211, K.212, T.213, M.214, I.344, T.347, I.348, G.372, A.373, N.376 Ligands: MG.9 10 PLIP interactions: 10 interactions with chain Q Hydrogen bonds: Q:G.168, Q:G.168, Q:C.210, Q:G.211, Q:K.212, Q:T.213, Q:T.213, Q:M.214, Q:N.376 Salt bridges: Q:K.212 ADP.10: 13 residues within 4Å: Chain R: E.134, I.135, G.136, L.138, P.176, G.177, T.178, G.179, K.180, T.181, L.182, N.339 Ligands: MG.11 8 PLIP interactions: 8 interactions with chain R Hydrogen bonds: R:G.136, R:P.176, R:P.176, R:G.179, R:K.180, R:N.339 Salt bridges: R:K.180, R:K.180 ADP.12: 16 residues within 4Å: Chain N: R.333, R.336 Chain S: G.189, L.191, P.229, G.230, T.231, G.232, K.233, T.234, L.235, N.333, H.369, G.393, A.394, K.397 13 PLIP interactions: 10 interactions with chain S, 3 interactions with chain N Hydrogen bonds: S:G.189, S:G.189, S:G.230, S:G.232, S:K.233, S:T.234, S:T.234, S:L.235, S:N.333, N:R.336 Salt bridges: S:K.233, N:R.333, N:R.333

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gao, J. et al., Structure of the TXNL1-bound proteasome. To Be Published

Release Date

2025-06-11

Peptides

26S proteasome non-ATPase regulatory subunit 1: A
26S proteasome non-ATPase regulatory subunit 3: B
26S proteasome non-ATPase regulatory subunit 12: C
26S proteasome non-ATPase regulatory subunit 11: D
26S proteasome non-ATPase regulatory subunit 6: E
26S proteasome non-ATPase regulatory subunit 7: F
26S proteasome non-ATPase regulatory subunit 13: G
26S proteasome non-ATPase regulatory subunit 4: H
26S proteasome non-ATPase regulatory subunit 14: I
26S proteasome non-ATPase regulatory subunit 8: J
26S proteasome complex subunit SEM1: K
26S proteasome non-ATPase regulatory subunit 2: L
Thioredoxin-like protein 1: M
26S proteasome regulatory subunit 7: N
26S proteasome regulatory subunit 4: O
26S protease regulatory subunit 8: P
26S proteasome regulatory subunit 6B: Q
26S protease regulatory subunit 10B: R
26S proteasome regulatory subunit 6A: S
Proteasome subunit alpha type-6: T
Proteasome subunit alpha type-2: U
Proteasome subunit alpha type-4: V
Proteasome subunit alpha type-7: W
Proteasome subunit alpha type-5: X
Proteasome subunit alpha type-1: Y
Proteasome subunit alpha type-3: Z
Proteasome subunit beta type-6: 07
Proteasome subunit beta type-7: 18
Proteasome subunit beta type-3: 29
Proteasome subunit beta type-2: 3a
Proteasome subunit beta type-5: 4b
Proteasome subunit beta type-1: 5c
Proteasome subunit beta type-4: 6d

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
U

B
V

C
W

D
X

E
Y

F
Z

G
a

H
b

I
c

J
d

K
e

L
f

M
x

N
A

O
B

P
C

Q
D

R
E

S
F

T
G

U
H

V
I

W
J

X
K

Y
L

Z
M

0
N

7
n

1
O

8
o

2
P

9
p

3
Q

a
q

4
R

b
r

5
S

c
s

6
T

d
t

26S proteasome non-ATPase regulatory subunit 1

26S proteasome non-ATPase regulatory subunit 3

26S proteasome non-ATPase regulatory subunit 12

26S proteasome non-ATPase regulatory subunit 11

26S proteasome non-ATPase regulatory subunit 6

26S proteasome non-ATPase regulatory subunit 7

26S proteasome non-ATPase regulatory subunit 13

26S proteasome non-ATPase regulatory subunit 4

26S proteasome non-ATPase regulatory subunit 14

26S proteasome non-ATPase regulatory subunit 8

26S proteasome complex subunit SEM1

26S proteasome non-ATPase regulatory subunit 2

Thioredoxin-like protein 1

26S proteasome regulatory subunit 7

26S proteasome regulatory subunit 4

26S protease regulatory subunit 8

26S proteasome regulatory subunit 6B

26S protease regulatory subunit 10B

26S proteasome regulatory subunit 6A

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

Related Entries With Identical Sequence