SMTL ID : 7zhs.1

3D reconstruction of the cylindrical assembly of DnaJA2 delta G/F by imposing D5 symmetry

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY 6.90 Å

Oligo State

homo-40-mer

Ligands

80 x ZN: ZINC ION(Non-covalent)

ZN.1: 6 residues within 4Å: Chain A: C.228, C.231, G.235, R.286, C.287, C.290 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:C.228, A:C.231, A:C.290 ZN.2: 4 residues within 4Å: Chain A: C.244, C.247, C.271, C.274 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.244, A:C.247, A:C.271, A:C.274 ZN.3: 6 residues within 4Å: Chain B: C.228, C.231, G.235, R.286, C.287, C.290 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:C.228, B:C.231, B:C.290 ZN.4: 4 residues within 4Å: Chain B: C.244, C.247, C.271, C.274 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.244, B:C.247, B:C.271, B:C.274 ZN.5: 6 residues within 4Å: Chain C: C.228, C.231, G.235, R.286, C.287, C.290 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:C.228, C:C.231, C:C.290 ZN.6: 4 residues within 4Å: Chain C: C.244, C.247, C.271, C.274 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:C.244, C:C.247, C:C.271, C:C.274 ZN.7: 6 residues within 4Å: Chain D: C.228, C.231, G.235, R.286, C.287, C.290 3 PLIP interactions: 3 interactions with chain D Metal complexes: D:C.228, D:C.231, D:C.290 ZN.8: 4 residues within 4Å: Chain D: C.244, C.247, C.271, C.274 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:C.244, D:C.247, D:C.271, D:C.274 ZN.9: 6 residues within 4Å: Chain E: C.228, C.231, G.235, R.286, C.287, C.290 3 PLIP interactions: 3 interactions with chain E Metal complexes: E:C.228, E:C.231, E:C.290 ZN.10: 4 residues within 4Å: Chain E: C.244, C.247, C.271, C.274 4 PLIP interactions: 4 interactions with chain E Metal complexes: E:C.244, E:C.247, E:C.271, E:C.274 ZN.11: 6 residues within 4Å: Chain F: C.228, C.231, G.235, R.286, C.287, C.290 3 PLIP interactions: 3 interactions with chain F Metal complexes: F:C.228, F:C.231, F:C.290 ZN.12: 4 residues within 4Å: Chain F: C.244, C.247, C.271, C.274 4 PLIP interactions: 4 interactions with chain F Metal complexes: F:C.244, F:C.247, F:C.271, F:C.274 ZN.13: 6 residues within 4Å: Chain G: C.228, C.231, G.235, R.286, C.287, C.290 3 PLIP interactions: 3 interactions with chain G Metal complexes: G:C.228, G:C.231, G:C.290 ZN.14: 4 residues within 4Å: Chain G: C.244, C.247, C.271, C.274 4 PLIP interactions: 4 interactions with chain G Metal complexes: G:C.244, G:C.247, G:C.271, G:C.274 ZN.15: 6 residues within 4Å: Chain H: C.228, C.231, G.235, R.286, C.287, C.290 3 PLIP interactions: 3 interactions with chain H Metal complexes: H:C.228, H:C.231, H:C.290 ZN.16: 4 residues within 4Å: Chain H: C.244, C.247, C.271, C.274 4 PLIP interactions: 4 interactions with chain H Metal complexes: H:C.244, H:C.247, H:C.271, H:C.274 ZN.17: 6 residues within 4Å: Chain I: C.228, C.231, G.235, R.286, C.287, C.290 3 PLIP interactions: 3 interactions with chain I Metal complexes: I:C.228, I:C.231, I:C.290 ZN.18: 4 residues within 4Å: Chain I: C.244, C.247, C.271, C.274 4 PLIP interactions: 4 interactions with chain I Metal complexes: I:C.244, I:C.247, I:C.271, I:C.274 ZN.19: 6 residues within 4Å: Chain J: C.228, C.231, G.235, R.286, C.287, C.290 3 PLIP interactions: 3 interactions with chain J Metal complexes: J:C.228, J:C.231, J:C.290 ZN.20: 4 residues within 4Å: Chain J: C.244, C.247, C.271, C.274 4 PLIP interactions: 4 interactions with chain J Metal complexes: J:C.244, J:C.247, J:C.271, J:C.274 ZN.21: 6 residues within 4Å: Chain K: C.228, C.231, G.235, R.286, C.287, C.290 3 PLIP interactions: 3 interactions with chain K Metal complexes: K:C.228, K:C.231, K:C.290 ZN.22: 4 residues within 4Å: Chain K: C.244, C.247, C.271, C.274 4 PLIP interactions: 4 interactions with chain K Metal complexes: K:C.244, K:C.247, K:C.271, K:C.274 ZN.23: 6 residues within 4Å: Chain L: C.228, C.231, G.235, R.286, C.287, C.290 3 PLIP interactions: 3 interactions with chain L Metal complexes: L:C.228, L:C.231, L:C.290 ZN.24: 4 residues within 4Å: Chain L: C.244, C.247, C.271, C.274 4 PLIP interactions: 4 interactions with chain L Metal complexes: L:C.244, L:C.247, L:C.271, L:C.274 ZN.25: 6 residues within 4Å: Chain M: C.228, C.231, G.235, R.286, C.287, C.290 3 PLIP interactions: 3 interactions with chain M Metal complexes: M:C.228, M:C.231, M:C.290 ZN.26: 4 residues within 4Å: Chain M: C.244, C.247, C.271, C.274 4 PLIP interactions: 4 interactions with chain M Metal complexes: M:C.244, M:C.247, M:C.271, M:C.274 ZN.27: 6 residues within 4Å: Chain N: C.228, C.231, G.235, R.286, C.287, C.290 3 PLIP interactions: 3 interactions with chain N Metal complexes: N:C.228, N:C.231, N:C.290 ZN.28: 4 residues within 4Å: Chain N: C.244, C.247, C.271, C.274 4 PLIP interactions: 4 interactions with chain N Metal complexes: N:C.244, N:C.247, N:C.271, N:C.274 ZN.29: 6 residues within 4Å: Chain O: C.228, C.231, G.235, R.286, C.287, C.290 3 PLIP interactions: 3 interactions with chain O Metal complexes: O:C.228, O:C.231, O:C.290 ZN.30: 4 residues within 4Å: Chain O: C.244, C.247, C.271, C.274 4 PLIP interactions: 4 interactions with chain O Metal complexes: O:C.244, O:C.247, O:C.271, O:C.274 ZN.31: 6 residues within 4Å: Chain P: C.228, C.231, G.235, R.286, C.287, C.290 3 PLIP interactions: 3 interactions with chain P Metal complexes: P:C.228, P:C.231, P:C.290 ZN.32: 4 residues within 4Å: Chain P: C.244, C.247, C.271, C.274 4 PLIP interactions: 4 interactions with chain P Metal complexes: P:C.244, P:C.247, P:C.271, P:C.274 ZN.33: 6 residues within 4Å: Chain Q: C.228, C.231, G.235, R.286, C.287, C.290 3 PLIP interactions: 3 interactions with chain Q Metal complexes: Q:C.228, Q:C.231, Q:C.290 ZN.34: 4 residues within 4Å: Chain Q: C.244, C.247, C.271, C.274 4 PLIP interactions: 4 interactions with chain Q Metal complexes: Q:C.244, Q:C.247, Q:C.271, Q:C.274 ZN.35: 6 residues within 4Å: Chain R: C.228, C.231, G.235, R.286, C.287, C.290 3 PLIP interactions: 3 interactions with chain R Metal complexes: R:C.228, R:C.231, R:C.290 ZN.36: 4 residues within 4Å: Chain R: C.244, C.247, C.271, C.274 4 PLIP interactions: 4 interactions with chain R Metal complexes: R:C.244, R:C.247, R:C.271, R:C.274 ZN.37: 6 residues within 4Å: Chain S: C.228, C.231, G.235, R.286, C.287, C.290 3 PLIP interactions: 3 interactions with chain S Metal complexes: S:C.228, S:C.231, S:C.290 ZN.38: 4 residues within 4Å: Chain S: C.244, C.247, C.271, C.274 4 PLIP interactions: 4 interactions with chain S Metal complexes: S:C.244, S:C.247, S:C.271, S:C.274 ZN.39: 6 residues within 4Å: Chain T: C.228, C.231, G.235, R.286, C.287, C.290 3 PLIP interactions: 3 interactions with chain T Metal complexes: T:C.228, T:C.231, T:C.290 ZN.40: 4 residues within 4Å: Chain T: C.244, C.247, C.271, C.274 4 PLIP interactions: 4 interactions with chain T Metal complexes: T:C.244, T:C.247, T:C.271, T:C.274 ZN.41: 6 residues within 4Å: Chain U: C.228, C.231, G.235, R.286, C.287, C.290 3 PLIP interactions: 3 interactions with chain U Metal complexes: U:C.228, U:C.231, U:C.290 ZN.42: 4 residues within 4Å: Chain U: C.244, C.247, C.271, C.274 4 PLIP interactions: 4 interactions with chain U Metal complexes: U:C.244, U:C.247, U:C.271, U:C.274 ZN.43: 6 residues within 4Å: Chain V: C.228, C.231, G.235, R.286, C.287, C.290 3 PLIP interactions: 3 interactions with chain V Metal complexes: V:C.228, V:C.231, V:C.290 ZN.44: 4 residues within 4Å: Chain V: C.244, C.247, C.271, C.274 4 PLIP interactions: 4 interactions with chain V Metal complexes: V:C.244, V:C.247, V:C.271, V:C.274 ZN.45: 6 residues within 4Å: Chain W: C.228, C.231, G.235, R.286, C.287, C.290 3 PLIP interactions: 3 interactions with chain W Metal complexes: W:C.228, W:C.231, W:C.290 ZN.46: 4 residues within 4Å: Chain W: C.244, C.247, C.271, C.274 4 PLIP interactions: 4 interactions with chain W Metal complexes: W:C.244, W:C.247, W:C.271, W:C.274 ZN.47: 6 residues within 4Å: Chain X: C.228, C.231, G.235, R.286, C.287, C.290 3 PLIP interactions: 3 interactions with chain X Metal complexes: X:C.228, X:C.231, X:C.290 ZN.48: 4 residues within 4Å: Chain X: C.244, C.247, C.271, C.274 4 PLIP interactions: 4 interactions with chain X Metal complexes: X:C.244, X:C.247, X:C.271, X:C.274 ZN.49: 6 residues within 4Å: Chain Y: C.228, C.231, G.235, R.286, C.287, C.290 3 PLIP interactions: 3 interactions with chain Y Metal complexes: Y:C.228, Y:C.231, Y:C.290 ZN.50: 4 residues within 4Å: Chain Y: C.244, C.247, C.271, C.274 4 PLIP interactions: 4 interactions with chain Y Metal complexes: Y:C.244, Y:C.247, Y:C.271, Y:C.274 ZN.51: 6 residues within 4Å: Chain Z: C.228, C.231, G.235, R.286, C.287, C.290 3 PLIP interactions: 3 interactions with chain Z Metal complexes: Z:C.228, Z:C.231, Z:C.290 ZN.52: 4 residues within 4Å: Chain Z: C.244, C.247, C.271, C.274 4 PLIP interactions: 4 interactions with chain Z Metal complexes: Z:C.244, Z:C.247, Z:C.271, Z:C.274 ZN.53: 6 residues within 4Å: Chain 0: C.228, C.231, G.235, R.286, C.287, C.290 3 PLIP interactions: 3 interactions with chain 0 Metal complexes: 0:C.228, 0:C.231, 0:C.290 ZN.54: 4 residues within 4Å: Chain 0: C.244, C.247, C.271, C.274 4 PLIP interactions: 4 interactions with chain 0 Metal complexes: 0:C.244, 0:C.247, 0:C.271, 0:C.274 ZN.55: 6 residues within 4Å: Chain 1: C.228, C.231, G.235, R.286, C.287, C.290 3 PLIP interactions: 3 interactions with chain 1 Metal complexes: 1:C.228, 1:C.231, 1:C.290 ZN.56: 4 residues within 4Å: Chain 1: C.244, C.247, C.271, C.274 4 PLIP interactions: 4 interactions with chain 1 Metal complexes: 1:C.244, 1:C.247, 1:C.271, 1:C.274 ZN.57: 6 residues within 4Å: Chain 2: C.228, C.231, G.235, R.286, C.287, C.290 3 PLIP interactions: 3 interactions with chain 2 Metal complexes: 2:C.228, 2:C.231, 2:C.290 ZN.58: 4 residues within 4Å: Chain 2: C.244, C.247, C.271, C.274 4 PLIP interactions: 4 interactions with chain 2 Metal complexes: 2:C.244, 2:C.247, 2:C.271, 2:C.274 ZN.59: 6 residues within 4Å: Chain 3: C.228, C.231, G.235, R.286, C.287, C.290 3 PLIP interactions: 3 interactions with chain 3 Metal complexes: 3:C.228, 3:C.231, 3:C.290 ZN.60: 4 residues within 4Å: Chain 3: C.244, C.247, C.271, C.274 4 PLIP interactions: 4 interactions with chain 3 Metal complexes: 3:C.244, 3:C.247, 3:C.271, 3:C.274 ZN.61: 6 residues within 4Å: Chain 4: C.228, C.231, G.235, R.286, C.287, C.290 3 PLIP interactions: 3 interactions with chain 4 Metal complexes: 4:C.228, 4:C.231, 4:C.290 ZN.62: 4 residues within 4Å: Chain 4: C.244, C.247, C.271, C.274 4 PLIP interactions: 4 interactions with chain 4 Metal complexes: 4:C.244, 4:C.247, 4:C.271, 4:C.274 ZN.63: 6 residues within 4Å: Chain 5: C.228, C.231, G.235, R.286, C.287, C.290 3 PLIP interactions: 3 interactions with chain 5 Metal complexes: 5:C.228, 5:C.231, 5:C.290 ZN.64: 4 residues within 4Å: Chain 5: C.244, C.247, C.271, C.274 4 PLIP interactions: 4 interactions with chain 5 Metal complexes: 5:C.244, 5:C.247, 5:C.271, 5:C.274 ZN.65: 6 residues within 4Å: Chain 6: C.228, C.231, G.235, R.286, C.287, C.290 3 PLIP interactions: 3 interactions with chain 6 Metal complexes: 6:C.228, 6:C.231, 6:C.290 ZN.66: 4 residues within 4Å: Chain 6: C.244, C.247, C.271, C.274 4 PLIP interactions: 4 interactions with chain 6 Metal complexes: 6:C.244, 6:C.247, 6:C.271, 6:C.274 ZN.67: 6 residues within 4Å: Chain 7: C.228, C.231, G.235, R.286, C.287, C.290 3 PLIP interactions: 3 interactions with chain 7 Metal complexes: 7:C.228, 7:C.231, 7:C.290 ZN.68: 4 residues within 4Å: Chain 7: C.244, C.247, C.271, C.274 4 PLIP interactions: 4 interactions with chain 7 Metal complexes: 7:C.244, 7:C.247, 7:C.271, 7:C.274 ZN.69: 6 residues within 4Å: Chain 8: C.228, C.231, G.235, R.286, C.287, C.290 3 PLIP interactions: 3 interactions with chain 8 Metal complexes: 8:C.228, 8:C.231, 8:C.290 ZN.70: 4 residues within 4Å: Chain 8: C.244, C.247, C.271, C.274 4 PLIP interactions: 4 interactions with chain 8 Metal complexes: 8:C.244, 8:C.247, 8:C.271, 8:C.274 ZN.71: 6 residues within 4Å: Chain 9: C.228, C.231, G.235, R.286, C.287, C.290 3 PLIP interactions: 3 interactions with chain 9 Metal complexes: 9:C.228, 9:C.231, 9:C.290 ZN.72: 4 residues within 4Å: Chain 9: C.244, C.247, C.271, C.274 4 PLIP interactions: 4 interactions with chain 9 Metal complexes: 9:C.244, 9:C.247, 9:C.271, 9:C.274 ZN.73: 6 residues within 4Å: Chain a: C.228, C.231, G.235, R.286, C.287, C.290 3 PLIP interactions: 3 interactions with chain a Metal complexes: a:C.228, a:C.231, a:C.290 ZN.74: 4 residues within 4Å: Chain a: C.244, C.247, C.271, C.274 4 PLIP interactions: 4 interactions with chain a Metal complexes: a:C.244, a:C.247, a:C.271, a:C.274 ZN.75: 6 residues within 4Å: Chain b: C.228, C.231, G.235, R.286, C.287, C.290 3 PLIP interactions: 3 interactions with chain b Metal complexes: b:C.228, b:C.231, b:C.290 ZN.76: 4 residues within 4Å: Chain b: C.244, C.247, C.271, C.274 4 PLIP interactions: 4 interactions with chain b Metal complexes: b:C.244, b:C.247, b:C.271, b:C.274 ZN.77: 6 residues within 4Å: Chain c: C.228, C.231, G.235, R.286, C.287, C.290 3 PLIP interactions: 3 interactions with chain c Metal complexes: c:C.228, c:C.231, c:C.290 ZN.78: 4 residues within 4Å: Chain c: C.244, C.247, C.271, C.274 4 PLIP interactions: 4 interactions with chain c Metal complexes: c:C.244, c:C.247, c:C.271, c:C.274 ZN.79: 6 residues within 4Å: Chain d: C.228, C.231, G.235, R.286, C.287, C.290 3 PLIP interactions: 3 interactions with chain d Metal complexes: d:C.228, d:C.231, d:C.290 ZN.80: 4 residues within 4Å: Chain d: C.244, C.247, C.271, C.274 4 PLIP interactions: 4 interactions with chain d Metal complexes: d:C.244, d:C.247, d:C.271, d:C.274

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Velasco-Carneros, L. et al., The self-association equilibrium of DNAJA2 regulates its interaction with unfolded substrate proteins and with Hsc70. Nat Commun (2023)

Release Date

2023-07-26

Peptides

Ubiquitin-like protein SMT3,DnaJ homolog subfamily A member 2: ABCDEFGHIJKLMNOPQRSTUVWXYZ0123456789abcd

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

C
B

D
D

E
E

F
G

G
F

H
H

I
I

J
Q

K
M

L
U

M
Y

N
g

O
c

P
k

Q
J

R
R

S
N

T
V

U
Z

V
h

W
d

X
l

Y
K

Z
S

0
O

1
W

2
a

3
i

4
e

5
m

6
L

7
T

8
P

9
X

a
b

b
j

c
f

d
n

Ubiquitin-like protein SMT3,DnaJ homolog subfamily A member 2