SMTL ID : 9k80.1

Cryo-EM structure of designed zinc-induced filament Fiber-n6-Zn1-HEHE-5

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-16-mer

Ligands

26 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: D.197, H.250 Chain J: H.42, D.46 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.197, A:D.197 ZN.2: 3 residues within 4Å: Chain A: D.71, H.75 Chain C: H.40 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain C Metal complexes: A:D.71, A:D.71, A:H.75, C:H.40 ZN.3: 4 residues within 4Å: Chain A: H.42, D.46 Chain K: D.197, H.250 5 PLIP interactions: 2 interactions with chain A, 3 interactions with chain K Metal complexes: A:D.46, A:D.46, K:D.197, K:D.197, K:H.250 ZN.4: 3 residues within 4Å: Chain A: H.40 Chain B: D.71, H.75 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain A Metal complexes: B:D.71, B:D.71, B:H.75, A:H.40 ZN.5: 5 residues within 4Å: Chain B: D.197, H.250, F.253 Chain L: H.42, D.46 4 PLIP interactions: 2 interactions with chain L, 2 interactions with chain B Metal complexes: L:D.46, L:D.46, B:D.197, B:H.250 ZN.6: 3 residues within 4Å: Chain C: D.71, H.75 Chain E: H.40 4 PLIP interactions: 3 interactions with chain C, 1 interactions with chain E Metal complexes: C:D.71, C:D.71, C:H.75, E:H.40 ZN.7: 5 residues within 4Å: Chain C: H.42, D.46 Chain M: D.197, H.250, F.253 2 PLIP interactions: 2 interactions with chain M Metal complexes: M:D.197, M:H.250 ZN.8: 4 residues within 4Å: Chain B: H.40, Q.43 Chain D: D.71, H.75 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain D Metal complexes: B:H.40, D:D.71, D:D.71 ZN.9: 4 residues within 4Å: Chain D: D.197, H.250 Chain N: H.42, D.46 3 PLIP interactions: 3 interactions with chain D Metal complexes: D:D.197, D:D.197, D:H.250 ZN.10: 4 residues within 4Å: Chain D: H.42, D.46 Chain G: D.197, H.250 4 PLIP interactions: 2 interactions with chain D, 2 interactions with chain G Metal complexes: D:H.42, D:D.46, G:D.197, G:D.197 ZN.11: 3 residues within 4Å: Chain E: D.71, H.75 Chain G: H.40 4 PLIP interactions: 3 interactions with chain E, 1 interactions with chain G Metal complexes: E:D.71, E:D.71, E:H.75, G:H.40 ZN.12: 5 residues within 4Å: Chain E: H.42, D.46 Chain O: D.197, H.250, F.253 4 PLIP interactions: 3 interactions with chain E, 1 interactions with chain O Metal complexes: E:H.42, E:D.46, E:D.46, O:H.250 ZN.13: 3 residues within 4Å: Chain D: H.40 Chain F: D.71, H.75 3 PLIP interactions: 1 interactions with chain D, 2 interactions with chain F Metal complexes: D:H.40, F:D.71, F:D.71 ZN.14: 4 residues within 4Å: Chain E: D.197, H.250 Chain F: H.42, D.46 5 PLIP interactions: 3 interactions with chain E, 2 interactions with chain F Metal complexes: E:D.197, E:D.197, E:H.250, F:D.46, F:D.46 ZN.15: 3 residues within 4Å: Chain G: D.71, H.75 Chain I: H.40 4 PLIP interactions: 3 interactions with chain G, 1 interactions with chain I Metal complexes: G:D.71, G:D.71, G:H.75, I:H.40 ZN.16: 4 residues within 4Å: Chain C: D.197, H.250 Chain H: H.42, D.46 5 PLIP interactions: 3 interactions with chain H, 2 interactions with chain C Metal complexes: H:H.42, H:D.46, H:D.46, C:D.197, C:D.197 ZN.17: 3 residues within 4Å: Chain F: H.40 Chain H: D.71, H.75 4 PLIP interactions: 3 interactions with chain H, 1 interactions with chain F Metal complexes: H:D.71, H:D.71, H:H.75, F:H.40 ZN.18: 4 residues within 4Å: Chain B: H.42, D.46 Chain I: D.197, H.250 4 PLIP interactions: 1 interactions with chain B, 3 interactions with chain I Metal complexes: B:D.46, I:D.197, I:D.197, I:H.250 ZN.19: 3 residues within 4Å: Chain I: D.71, H.75 Chain K: H.40 4 PLIP interactions: 1 interactions with chain K, 3 interactions with chain I Metal complexes: K:H.40, I:D.71, I:D.71, I:H.75 ZN.20: 3 residues within 4Å: Chain H: H.40 Chain J: D.71, H.75 3 PLIP interactions: 1 interactions with chain H, 2 interactions with chain J Metal complexes: H:H.40, J:D.71, J:D.71 ZN.21: 4 residues within 4Å: Chain K: D.71, H.75 Chain M: H.40, Q.43 4 PLIP interactions: 3 interactions with chain K, 1 interactions with chain M Metal complexes: K:D.71, K:D.71, K:H.75, M:H.40 ZN.22: 3 residues within 4Å: Chain J: H.40 Chain L: D.71, H.75 4 PLIP interactions: 3 interactions with chain L, 1 interactions with chain J Metal complexes: L:D.71, L:D.71, L:H.75, J:H.40 ZN.23: 4 residues within 4Å: Chain M: D.71, H.75 Chain O: H.40, Q.43 4 PLIP interactions: 1 interactions with chain O, 3 interactions with chain M Metal complexes: O:H.40, M:D.71, M:D.71, M:H.75 ZN.24: 4 residues within 4Å: Chain L: H.40, Q.43 Chain N: D.71, H.75 4 PLIP interactions: 1 interactions with chain L, 3 interactions with chain N Metal complexes: L:H.40, N:D.71, N:D.71, N:H.75 ZN.25: 4 residues within 4Å: Chain F: D.197, H.250 Chain P: H.42, D.46 4 PLIP interactions: 2 interactions with chain F, 2 interactions with chain P Metal complexes: F:D.197, F:H.250, P:D.46, P:D.46 ZN.26: 3 residues within 4Å: Chain N: H.40 Chain P: D.71, H.75 4 PLIP interactions: 1 interactions with chain N, 3 interactions with chain P Metal complexes: N:H.40, P:D.71, P:D.71, P:H.75

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Qu, Y.N. et al., De novo design of metal ion regulated protein assemblies. To Be Published

Release Date

2025-10-29

Peptides

Fiber-n6-Zn1-HEHE-5: ABCDEFGHIJKLMNOP

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
G

H
H

I
I

J
J

K
K

L
L

M
M

N
N

O
O

P
P

Fiber-n6-Zn1-HEHE-5