SMTL ID : 6zlq.1

Folding of an iron binding peptide in response to sedimentation is resolved using ferritin as a nano-reactor

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-24-mer

Ligands

16 x FE: FE (III) ION(Non-covalent)

FE.1: 6 residues within 4Å: Chain B: C.147, E.151 Chain E: C.147, E.151 Chain T: E.151 Ligands: FE.12 3 PLIP interactions: 1 interactions with chain E, 1 interactions with chain T, 1 interactions with chain B Metal complexes: E:C.147, T:E.151, B:E.151 FE.2: 7 residues within 4Å: Chain C: C.147, E.151 Chain L: C.147, E.151 Chain X: C.147, E.151 Ligands: FE.16 4 PLIP interactions: 2 interactions with chain X, 1 interactions with chain L, 1 interactions with chain C Metal complexes: X:C.147, X:E.151, L:E.151, C:C.147 FE.3: 6 residues within 4Å: Chain F: C.147, E.151 Chain P: C.147, E.151 Chain U: C.147, E.151 3 PLIP interactions: 1 interactions with chain F, 1 interactions with chain P, 1 interactions with chain U Metal complexes: F:C.147, P:C.147, U:C.147 FE.4: 7 residues within 4Å: Chain G: C.147, E.151 Chain K: C.147, E.151 Chain R: C.147, E.151 Ligands: FE.5 2 PLIP interactions: 1 interactions with chain G, 1 interactions with chain R Metal complexes: G:C.147, R:C.147 FE.5: 7 residues within 4Å: Chain G: C.147, E.151 Chain K: C.147, E.151 Chain R: C.147, E.151 Ligands: FE.4 3 PLIP interactions: 2 interactions with chain K, 1 interactions with chain R Metal complexes: K:C.147, K:E.151, R:C.147 FE.6: 7 residues within 4Å: Chain H: C.147, E.151 Chain N: C.147, E.151 Chain O: C.147, E.151 Ligands: FE.8 3 PLIP interactions: 2 interactions with chain O, 1 interactions with chain H Metal complexes: O:C.147, O:E.151, H:C.147 FE.7: 7 residues within 4Å: Chain D: C.147, E.151 Chain M: C.147, E.151 Chain V: C.147, E.151 Ligands: FE.13 2 PLIP interactions: 1 interactions with chain M, 1 interactions with chain V Metal complexes: M:E.151, V:C.147 FE.8: 7 residues within 4Å: Chain H: C.147, E.151 Chain N: C.147, E.151 Chain O: C.147, E.151 Ligands: FE.6 3 PLIP interactions: 2 interactions with chain O, 1 interactions with chain N Metal complexes: O:C.147, O:E.151, N:C.147 FE.9: 4 residues within 4Å: Chain P: C.147, D.148, E.151 Chain U: E.151 2 PLIP interactions: 2 interactions with chain U Metal complexes: U:E.151, U:E.151 FE.10: 7 residues within 4Å: Chain I: C.147, E.151 Chain Q: C.147, E.151 Chain S: C.147, E.151 Ligands: FE.11 2 PLIP interactions: 1 interactions with chain Q, 1 interactions with chain I Metal complexes: Q:C.147, I:C.147 FE.11: 7 residues within 4Å: Chain I: C.147, E.151 Chain Q: C.147, E.151 Chain S: C.147, E.151 Ligands: FE.10 2 PLIP interactions: 1 interactions with chain S, 1 interactions with chain I Metal complexes: S:C.147, I:C.147 FE.12: 7 residues within 4Å: Chain B: C.147, E.151 Chain E: C.147, E.151 Chain T: C.147, E.151 Ligands: FE.1 2 PLIP interactions: 1 interactions with chain E, 1 interactions with chain T Metal complexes: E:C.147, T:E.151 FE.13: 7 residues within 4Å: Chain D: C.147, E.151 Chain M: C.147, E.151 Chain V: C.147, E.151 Ligands: FE.7 3 PLIP interactions: 1 interactions with chain D, 2 interactions with chain V Metal complexes: D:C.147, V:C.147, V:E.151 FE.14: 2 residues within 4Å: Chain W: D.148, E.151 No protein-ligand interaction detected (PLIP) FE.15: 7 residues within 4Å: Chain A: C.147, E.151 Chain J: C.147, E.151 Chain W: C.147, D.148, E.151 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain W Metal complexes: A:C.147, W:D.148 FE.16: 7 residues within 4Å: Chain C: C.147, E.151 Chain L: C.147, E.151 Chain X: C.147, E.151 Ligands: FE.2 2 PLIP interactions: 1 interactions with chain X, 1 interactions with chain L Metal complexes: X:C.147, L:E.151

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Davidov, G. et al., Folding of an Intrinsically Disordered Iron-Binding Peptide in Response to Sedimentation Revealed by Cryo-EM. J.Am.Chem.Soc. (2020)

Release Date

2021-07-14

Peptides

Ferritin: ABCDEFGHIJKLMNOPQRSTUVWX

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
Z

B
A

C
C

D
E

E
G

F
H

G
I

H
J

I
K

J
L

K
M

L
N

M
O

N
P

O
Q

P
R

Q
S

R
T

S
U

T
V

U
W

V
B

W
D

X
F

Ferritin

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