SMTL ID : 7qxw.1

Proteasome-ZFAND5 Complex Z+D state

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

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

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain I: E.51, H.112, H.114, S.122, D.125 5 PLIP interactions: 5 interactions with chain I Metal complexes: I:E.51, I:H.112, I:H.114, I:S.122, I:D.125

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

ATP.2: 19 residues within 4Å: Chain L: D.176, G.178, P.217, P.218, G.219, T.220, G.221, K.222, T.223, L.224, E.276, N.322, I.354, I.357, H.358, G.382, A.383 Chain M: R.343 Ligands: MG.3 17 PLIP interactions: 14 interactions with chain L, 3 interactions with chain M Hydrogen bonds: L:G.178, L:G.219, L:T.220, L:G.221, L:K.222, L:T.223, L:T.223, L:T.223, L:L.224, L:E.276, L:N.322, L:N.322, L:G.382 Salt bridges: L:K.222, M:R.343, M:R.343, M:R.343 ATP.5: 17 residues within 4Å: Chain O: I.167, G.168, P.208, G.209, C.210, G.211, K.212, T.213, M.214, E.266, G.372, A.373, N.376 Chain P: D.279, R.305, R.308 Ligands: MG.6 14 PLIP interactions: 10 interactions with chain O, 4 interactions with chain P Hydrogen bonds: O:G.168, O:G.168, O:G.209, O:G.211, O:K.212, O:T.213, O:E.266, O:N.376, P:D.279 Salt bridges: O:K.212, O:K.212, P:R.305, P:R.305, P:R.308 ATP.8: 16 residues within 4Å: Chain L: R.333, R.336 Chain Q: G.189, P.229, G.230, T.231, G.232, K.233, T.234, L.235, D.286, I.365, H.369, G.393, A.394 Ligands: MG.9 9 PLIP interactions: 6 interactions with chain Q, 3 interactions with chain L Hydrogen bonds: Q:G.189, Q:G.232, Q:K.233, Q:T.234, Q:T.234, Q:G.393 Salt bridges: L:R.333, L:R.333, L:R.336

3 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 2 residues within 4Å: Chain L: T.223 Ligands: ATP.2 1 PLIP interactions: 1 interactions with chain L Metal complexes: L:T.223 MG.6: 4 residues within 4Å: Chain O: T.213 Chain P: D.279, G.280 Ligands: ATP.5 No protein-ligand interaction detected (PLIP) MG.9: 3 residues within 4Å: Chain Q: K.233, T.234 Ligands: ATP.8 No protein-ligand interaction detected (PLIP)

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

ADP.4: 15 residues within 4Å: Chain M: G.188, G.189, P.228, G.229, T.230, G.231, K.232, T.233, L.234, N.332, I.364, H.368, G.392, A.393, K.396 13 PLIP interactions: 13 interactions with chain M Hydrogen bonds: M:G.188, M:G.189, M:G.229, M:T.230, M:G.231, M:K.232, M:T.233, M:L.234, M:N.332, M:G.392, M:A.393 Salt bridges: M:K.232, M:K.232 ADP.7: 16 residues within 4Å: Chain P: P.190, G.191, T.192, G.193, K.194, T.195, L.196, N.294, I.326, H.330, G.354, A.355, R.358 Chain Q: D.318, R.344, R.347 17 PLIP interactions: 11 interactions with chain P, 6 interactions with chain Q Hydrogen bonds: P:G.191, P:T.195, P:T.195, P:T.195, P:L.196, P:N.294, P:G.354, P:A.355, P:R.358, Q:D.318, Q:R.344 Salt bridges: P:K.194, P:K.194, Q:R.344, Q:R.344, Q:R.347, Q:R.347

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lee, D. et al., Molecular mechanism for activation of the 26S proteasome by ZFAND5. Mol.Cell (2023)

Release Date

2023-02-08

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 non-ATPase regulatory subunit 2: K
26S protease regulatory subunit 7: L
26S proteasome regulatory subunit 4: M
Isoform 2 of 26S proteasome regulatory subunit 8: N
26S protease regulatory subunit 6B: O
26S proteasome regulatory subunit 10B: P
26S protease regulatory subunit 6A: Q
26S proteasome complex subunit SEM1: R
Proteasome subunit alpha type-6: S6
Proteasome subunit alpha type-2: T7
Proteasome subunit alpha type-4: U8
Proteasome subunit alpha type-7: V9
Proteasome subunit alpha type-5: Wa
Isoform Long of Proteasome subunit alpha type-1: Xb
Proteasome subunit alpha type-3: Yc
Proteasome subunit beta type-6: Zd
Proteasome subunit beta type-7: 0e
Proteasome subunit beta type-3: 1f
Proteasome subunit beta type-2: 2g
Proteasome subunit beta type-5: 3h
Proteasome subunit beta type-1: 4i
Proteasome subunit beta type-4: 5j
AN1-type zinc finger protein 5: k

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
f

L
A

M
B

N
C

O
D

P
E

Q
F

R
e

S
G

6
g

T
H

7
h

U
I

8
i

V
J

9
j

W
K

a
k

X
L

b
l

Y
M

c
m

Z
N

d
n

0
O

e
o

1
P

f
p

2
Q

g
q

3
R

h
r

4
S

i
s

5
T

j
t

k
v

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 non-ATPase regulatory subunit 2

26S protease regulatory subunit 7

26S proteasome regulatory subunit 4

Isoform 2 of 26S proteasome regulatory subunit 8

26S protease regulatory subunit 6B

26S proteasome regulatory subunit 10B

26S protease regulatory subunit 6A

26S proteasome complex subunit SEM1

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

Isoform Long of 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

AN1-type zinc finger protein 5

Related Entries With Identical Sequence