SMTL ID : 1z6o.1

Crystal Structure of Trichoplusia ni secreted ferritin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.91 Å

Oligo State

hetero-12-12-mer

Ligands

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

FE.1: 3 residues within 4Å: Chain A: E.165 Chain E: E.165 Chain L: E.165 5 PLIP interactions: 1 interactions with chain L, 1 interactions with chain A, 1 interactions with chain E, 2 Ligand-Water interactions Metal complexes: L:E.165, A:E.165, E:E.165, H2O.6, H2O.31 FE.4: 3 residues within 4Å: Chain B: E.165 Chain D: E.165 Chain K: E.165 5 PLIP interactions: 1 interactions with chain K, 1 interactions with chain D, 1 interactions with chain B, 2 Ligand-Water interactions Metal complexes: K:E.165, D:E.165, B:E.165, H2O.12, H2O.19 FE.7: 3 residues within 4Å: Chain C: E.165 Chain H: E.165 Chain I: E.165 5 PLIP interactions: 1 interactions with chain C, 1 interactions with chain H, 1 interactions with chain I, 2 Ligand-Water interactions Metal complexes: C:E.165, H:E.165, I:E.165, H2O.18, H2O.49 FE.10: 3 residues within 4Å: Chain F: E.165 Chain G: E.165 Chain J: E.165 5 PLIP interactions: 1 interactions with chain J, 1 interactions with chain F, 1 interactions with chain G, 2 Ligand-Water interactions Metal complexes: J:E.165, F:E.165, G:E.165, H2O.36, H2O.43 FE.13: 3 residues within 4Å: Chain M: E.32, E.67, H.70 5 PLIP interactions: 3 interactions with chain M, 2 Ligand-Water interactions Metal complexes: M:E.32, M:E.67, M:H.70, H2O.75, H2O.75 FE.14: 3 residues within 4Å: Chain N: E.32, E.67, H.70 5 PLIP interactions: 3 interactions with chain N, 2 Ligand-Water interactions Metal complexes: N:E.32, N:E.67, N:H.70, H2O.83, H2O.83 FE.15: 3 residues within 4Å: Chain O: E.32, E.67, H.70 5 PLIP interactions: 3 interactions with chain O, 2 Ligand-Water interactions Metal complexes: O:E.32, O:E.67, O:H.70, H2O.92, H2O.92 FE.16: 3 residues within 4Å: Chain P: E.32, E.67, H.70 5 PLIP interactions: 3 interactions with chain P, 2 Ligand-Water interactions Metal complexes: P:E.32, P:E.67, P:H.70, H2O.99, H2O.100 FE.17: 3 residues within 4Å: Chain Q: E.32, E.67, H.70 5 PLIP interactions: 3 interactions with chain Q, 2 Ligand-Water interactions Metal complexes: Q:E.32, Q:E.67, Q:H.70, H2O.108, H2O.108 FE.18: 3 residues within 4Å: Chain R: E.32, E.67, H.70 5 PLIP interactions: 3 interactions with chain R, 2 Ligand-Water interactions Metal complexes: R:E.32, R:E.67, R:H.70, H2O.117, H2O.117 FE.19: 3 residues within 4Å: Chain S: E.32, E.67, H.70 5 PLIP interactions: 3 interactions with chain S, 2 Ligand-Water interactions Metal complexes: S:E.32, S:E.67, S:H.70, H2O.124, H2O.124 FE.20: 3 residues within 4Å: Chain T: E.32, E.67, H.70 5 PLIP interactions: 3 interactions with chain T, 2 Ligand-Water interactions Metal complexes: T:E.32, T:E.67, T:H.70, H2O.132, H2O.132 FE.21: 3 residues within 4Å: Chain U: E.32, E.67, H.70 5 PLIP interactions: 3 interactions with chain U, 2 Ligand-Water interactions Metal complexes: U:E.32, U:E.67, U:H.70, H2O.141, H2O.141 FE.22: 3 residues within 4Å: Chain V: E.32, E.67, H.70 5 PLIP interactions: 3 interactions with chain V, 2 Ligand-Water interactions Metal complexes: V:E.32, V:E.67, V:H.70, H2O.149, H2O.149 FE.23: 3 residues within 4Å: Chain W: E.32, E.67, H.70 5 PLIP interactions: 3 interactions with chain W, 2 Ligand-Water interactions Metal complexes: W:E.32, W:E.67, W:H.70, H2O.158, H2O.158 FE.24: 3 residues within 4Å: Chain X: E.32, E.67, H.70 5 PLIP interactions: 3 interactions with chain X, 2 Ligand-Water interactions Metal complexes: X:E.32, X:E.67, X:H.70, H2O.166, H2O.166

8 x CA: CALCIUM ION(Non-covalent)

CA.2: 6 residues within 4Å: Chain A: Q.161, E.164 Chain E: Q.161, E.164 Chain L: Q.161, E.164 3 PLIP interactions: 1 interactions with chain E, 1 interactions with chain A, 1 interactions with chain L Metal complexes: E:E.164, A:E.164, L:E.164 CA.3: 3 residues within 4Å: Chain A: E.164 Chain E: E.164 Chain L: E.164 No protein-ligand interaction detected (PLIP) CA.5: 6 residues within 4Å: Chain B: Q.161, E.164 Chain D: Q.161, E.164 Chain K: Q.161, E.164 3 PLIP interactions: 1 interactions with chain B, 1 interactions with chain K, 1 interactions with chain D Metal complexes: B:E.164, K:E.164, D:E.164 CA.6: 3 residues within 4Å: Chain B: E.164 Chain D: E.164 Chain K: E.164 No protein-ligand interaction detected (PLIP) CA.8: 6 residues within 4Å: Chain C: Q.161, E.164 Chain H: Q.161, E.164 Chain I: Q.161, E.164 3 PLIP interactions: 1 interactions with chain C, 1 interactions with chain H, 1 interactions with chain I Metal complexes: C:E.164, H:E.164, I:E.164 CA.9: 3 residues within 4Å: Chain C: E.164 Chain H: E.164 Chain I: E.164 No protein-ligand interaction detected (PLIP) CA.11: 6 residues within 4Å: Chain F: Q.161, E.164 Chain G: Q.161, E.164 Chain J: Q.161, E.164 3 PLIP interactions: 1 interactions with chain G, 1 interactions with chain J, 1 interactions with chain F Metal complexes: G:E.164, J:E.164, F:E.164 CA.12: 3 residues within 4Å: Chain F: E.164 Chain G: E.164 Chain J: E.164 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hamburger, A.E. et al., Crystal structure of a secreted insect ferritin reveals a symmetrical arrangement of heavy and light chains. J.Mol.Biol. (2005)

Release Date

2005-05-24

Peptides

Ferritin light chain: ABCDEFGHIJKL
Ferritin heavy chain: MNOPQRSTUVWX

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

Q
Q

R
R

S
S

T
T

U
U

V
V

W
W

X
X

Ferritin light chain

Ferritin heavy chain