Atomistry » Iron » PDB 8bgw-8ca3 » 8bkb
Atomistry »
  Iron »
    PDB 8bgw-8ca3 »
      8bkb »

Iron in PDB 8bkb: Cryo-Em Structure of Mouse Heavy-Chain Apoferritin at 2.2 A Plunged 205MS After Mixing with B-Galactosidase

Enzymatic activity of Cryo-Em Structure of Mouse Heavy-Chain Apoferritin at 2.2 A Plunged 205MS After Mixing with B-Galactosidase

All present enzymatic activity of Cryo-Em Structure of Mouse Heavy-Chain Apoferritin at 2.2 A Plunged 205MS After Mixing with B-Galactosidase:
1.16.3.1;

Iron Binding Sites:

The binding sites of Iron atom in the Cryo-Em Structure of Mouse Heavy-Chain Apoferritin at 2.2 A Plunged 205MS After Mixing with B-Galactosidase (pdb code 8bkb). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 6 binding sites of Iron where determined in the Cryo-Em Structure of Mouse Heavy-Chain Apoferritin at 2.2 A Plunged 205MS After Mixing with B-Galactosidase, PDB code: 8bkb:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6;

Iron binding site 1 out of 6 in 8bkb

Go back to Iron Binding Sites List in 8bkb
Iron binding site 1 out of 6 in the Cryo-Em Structure of Mouse Heavy-Chain Apoferritin at 2.2 A Plunged 205MS After Mixing with B-Galactosidase


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Cryo-Em Structure of Mouse Heavy-Chain Apoferritin at 2.2 A Plunged 205MS After Mixing with B-Galactosidase within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe201

b:23.5
occ:1.00
 NE2 G:HIS173 2.9 8.9 1.0
NE2 B:HIS173 2.9 9.4 1.0
NE2 S:HIS173 2.9 7.8 1.0
NE2 L:HIS173 2.9 8.9 1.0
CE1 G:HIS173 3.6 11.4 1.0
CE1 L:HIS173 3.6 11.3 1.0
CE1 B:HIS173 3.6 11.2 1.0
CE1 S:HIS173 3.6 11.3 1.0
CD2 L:HIS173 4.1 5.3 1.0
CD2 S:HIS173 4.1 5.5 1.0
CD2 B:HIS173 4.1 5.8 1.0
CD2 G:HIS173 4.1 4.9 1.0
CD2 S:LEU169 4.2 3.9 1.0
CD2 L:LEU169 4.2 3.8 1.0
CD2 B:LEU169 4.2 3.1 1.0
CD2 G:LEU169 4.2 4.0 1.0
CD1 S:LEU169 4.8 5.3 1.0
CD1 L:LEU169 4.8 4.2 1.0
CD1 G:LEU169 4.8 4.5 1.0
CD1 B:LEU169 4.8 4.1 1.0
ND1 G:HIS173 4.9 12.4 1.0
ND1 B:HIS173 4.9 12.9 1.0
ND1 L:HIS173 4.9 12.8 1.0
ND1 S:HIS173 4.9 12.7 1.0

Iron binding site 2 out of 6 in 8bkb

Go back to Iron Binding Sites List in 8bkb
Iron binding site 2 out of 6 in the Cryo-Em Structure of Mouse Heavy-Chain Apoferritin at 2.2 A Plunged 205MS After Mixing with B-Galactosidase


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Cryo-Em Structure of Mouse Heavy-Chain Apoferritin at 2.2 A Plunged 205MS After Mixing with B-Galactosidase within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe201

b:24.1
occ:1.00
 NE2 K:HIS173 2.9 8.7 1.0
NE2 M:HIS173 2.9 9.1 1.0
NE2 C:HIS173 2.9 8.5 1.0
NE2 R:HIS173 2.9 8.2 1.0
CE1 K:HIS173 3.6 11.0 1.0
CE1 M:HIS173 3.6 11.2 1.0
CE1 C:HIS173 3.6 11.2 1.0
CE1 R:HIS173 3.6 11.3 1.0
CD2 K:HIS173 4.1 5.4 1.0
CD2 M:HIS173 4.1 4.9 1.0
CD2 R:HIS173 4.1 5.3 1.0
CD2 C:HIS173 4.1 5.8 1.0
CD2 K:LEU169 4.2 3.8 1.0
CD2 R:LEU169 4.2 3.8 1.0
CD2 M:LEU169 4.2 3.6 1.0
CD2 C:LEU169 4.2 3.2 1.0
CD1 R:LEU169 4.8 4.8 1.0
CD1 C:LEU169 4.8 4.1 1.0
CD1 K:LEU169 4.8 4.8 1.0
CD1 M:LEU169 4.8 4.7 1.0
ND1 K:HIS173 4.9 12.5 1.0
ND1 M:HIS173 4.9 12.1 1.0
ND1 C:HIS173 4.9 12.2 1.0
ND1 R:HIS173 4.9 12.3 1.0

Iron binding site 3 out of 6 in 8bkb

Go back to Iron Binding Sites List in 8bkb
Iron binding site 3 out of 6 in the Cryo-Em Structure of Mouse Heavy-Chain Apoferritin at 2.2 A Plunged 205MS After Mixing with B-Galactosidase


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Cryo-Em Structure of Mouse Heavy-Chain Apoferritin at 2.2 A Plunged 205MS After Mixing with B-Galactosidase within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Fe201

b:23.8
occ:1.00
 NE2 I:HIS173 2.9 7.7 1.0
NE2 J:HIS173 2.9 8.8 1.0
NE2 D:HIS173 2.9 8.0 1.0
NE2 F:HIS173 2.9 9.0 1.0
CE1 I:HIS173 3.6 10.9 1.0
CE1 J:HIS173 3.6 10.7 1.0
CE1 F:HIS173 3.6 10.3 1.0
CE1 D:HIS173 3.6 10.9 1.0
CD2 F:HIS173 4.1 5.2 1.0
CD2 D:HIS173 4.1 4.1 1.0
CD2 J:HIS173 4.1 5.1 1.0
CD2 I:HIS173 4.1 5.5 1.0
CD2 J:LEU169 4.2 3.3 1.0
CD2 D:LEU169 4.2 2.7 1.0
CD2 F:LEU169 4.2 4.1 1.0
CD2 I:LEU169 4.2 3.2 1.0
CD1 D:LEU169 4.8 4.5 1.0
CD1 J:LEU169 4.8 5.3 1.0
CD1 F:LEU169 4.8 5.1 1.0
CD1 I:LEU169 4.8 4.8 1.0
ND1 J:HIS173 4.9 12.0 1.0
ND1 I:HIS173 4.9 12.1 1.0
ND1 F:HIS173 4.9 12.1 1.0
ND1 D:HIS173 4.9 12.7 1.0

Iron binding site 4 out of 6 in 8bkb

Go back to Iron Binding Sites List in 8bkb
Iron binding site 4 out of 6 in the Cryo-Em Structure of Mouse Heavy-Chain Apoferritin at 2.2 A Plunged 205MS After Mixing with B-Galactosidase


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Cryo-Em Structure of Mouse Heavy-Chain Apoferritin at 2.2 A Plunged 205MS After Mixing with B-Galactosidase within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Fe201

b:24.6
occ:1.00
 NE2 P:HIS173 2.9 8.9 1.0
NE2 V:HIS173 2.9 8.7 1.0
NE2 H:HIS173 2.9 8.5 1.0
NE2 Y:HIS173 2.9 8.4 1.0
CE1 P:HIS173 3.6 10.3 1.0
CE1 Y:HIS173 3.6 11.1 1.0
CE1 V:HIS173 3.6 11.0 1.0
CE1 H:HIS173 3.6 10.8 1.0
CD2 Y:HIS173 4.1 5.1 1.0
CD2 P:HIS173 4.1 5.2 1.0
CD2 V:HIS173 4.1 4.9 1.0
CD2 H:HIS173 4.1 5.0 1.0
CD2 V:LEU169 4.2 3.5 1.0
CD2 Y:LEU169 4.2 3.6 1.0
CD2 H:LEU169 4.2 3.8 1.0
CD2 P:LEU169 4.2 3.0 1.0
CD1 Y:LEU169 4.8 5.2 1.0
CD1 V:LEU169 4.8 4.3 1.0
CD1 H:LEU169 4.8 5.3 1.0
CD1 P:LEU169 4.8 4.9 1.0
ND1 Y:HIS173 4.9 12.5 1.0
ND1 V:HIS173 4.9 12.3 1.0
ND1 P:HIS173 4.9 11.8 1.0
ND1 H:HIS173 4.9 12.3 1.0

Iron binding site 5 out of 6 in 8bkb

Go back to Iron Binding Sites List in 8bkb
Iron binding site 5 out of 6 in the Cryo-Em Structure of Mouse Heavy-Chain Apoferritin at 2.2 A Plunged 205MS After Mixing with B-Galactosidase


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Cryo-Em Structure of Mouse Heavy-Chain Apoferritin at 2.2 A Plunged 205MS After Mixing with B-Galactosidase within 5.0Å range:
probe atom residue distance (Å) B Occ
N:Fe201

b:25.2
occ:1.00
 NE2 N:HIS173 2.9 9.3 1.0
NE2 Q:HIS173 2.9 8.4 1.0
NE2 W:HIS173 2.9 8.6 1.0
NE2 O:HIS173 2.9 9.3 1.0
CE1 W:HIS173 3.6 11.2 1.0
CE1 N:HIS173 3.6 11.2 1.0
CE1 Q:HIS173 3.6 11.1 1.0
CE1 O:HIS173 3.6 11.2 1.0
CD2 W:HIS173 4.1 5.2 1.0
CD2 Q:HIS173 4.1 5.7 1.0
CD2 O:HIS173 4.1 4.9 1.0
CD2 N:HIS173 4.1 4.8 1.0
CD2 N:LEU169 4.2 4.0 1.0
CD2 O:LEU169 4.2 3.7 1.0
CD2 Q:LEU169 4.2 3.7 1.0
CD2 W:LEU169 4.2 4.7 1.0
CD1 N:LEU169 4.8 4.5 1.0
CD1 O:LEU169 4.8 3.9 1.0
CD1 Q:LEU169 4.8 4.1 1.0
CD1 W:LEU169 4.8 6.0 1.0
ND1 W:HIS173 4.9 12.4 1.0
ND1 O:HIS173 4.9 12.6 1.0
ND1 N:HIS173 4.9 12.9 1.0
ND1 Q:HIS173 4.9 12.1 1.0

Iron binding site 6 out of 6 in 8bkb

Go back to Iron Binding Sites List in 8bkb
Iron binding site 6 out of 6 in the Cryo-Em Structure of Mouse Heavy-Chain Apoferritin at 2.2 A Plunged 205MS After Mixing with B-Galactosidase


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of Cryo-Em Structure of Mouse Heavy-Chain Apoferritin at 2.2 A Plunged 205MS After Mixing with B-Galactosidase within 5.0Å range:
probe atom residue distance (Å) B Occ
T:Fe201

b:23.9
occ:1.00
 NE2 E:HIS173 2.9 8.5 1.0
NE2 A:HIS173 2.9 8.3 1.0
CE1 T:HIS173 2.9 7.4 1.0
CE1 X:HIS173 2.9 7.4 1.0
NE2 X:HIS173 3.4 12.5 1.0
NE2 T:HIS173 3.4 12.3 1.0
CE1 E:HIS173 3.6 11.5 1.0
CE1 A:HIS173 3.6 11.4 1.0
CD2 E:HIS173 4.1 4.8 1.0
CD2 A:HIS173 4.1 5.0 1.0
ND1 T:HIS173 4.1 6.1 1.0
ND1 X:HIS173 4.1 6.5 1.0
CD2 E:LEU169 4.2 3.9 1.0
CD2 A:LEU169 4.2 3.9 1.0
CD2 T:LEU169 4.2 4.0 1.0
CD2 X:LEU169 4.2 2.8 1.0
CD1 E:LEU169 4.8 5.2 1.0
CD1 A:LEU169 4.8 4.5 1.0
CD2 X:HIS173 4.8 9.5 1.0
CD1 T:LEU169 4.8 4.6 1.0
CD1 X:LEU169 4.8 4.3 1.0
CD2 T:HIS173 4.8 9.5 1.0
ND1 E:HIS173 4.9 12.4 1.0
ND1 A:HIS173 4.9 12.6 1.0

Reference:

S.Torino, M.Dhurandhar, A.Stroobants, R.Claessens, R.Efremov. Time-Resolved Cryo-Em Using A Combination of Droplet Microfluidics with on-Demand Jetting Nat.Methods 2023.
ISSN: ESSN 1548-7105
DOI: 10.1038/S41592-023-01967-Z
Page generated: Fri Aug 9 19:54:29 2024

Last articles

Zn in 9J0N
Zn in 9J0O
Zn in 9J0P
Zn in 9FJX
Zn in 9EKB
Zn in 9C0F
Zn in 9CAH
Zn in 9CH0
Zn in 9CH3
Zn in 9CH1
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy