Chlorine in PDB 7owy: Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 3 Minutes Showing A Peroxide Anion As Bridging Species of Iron Ions in the Ferroxidase Site

Enzymatic activity of Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 3 Minutes Showing A Peroxide Anion As Bridging Species of Iron Ions in the Ferroxidase Site

All present enzymatic activity of Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 3 Minutes Showing A Peroxide Anion As Bridging Species of Iron Ions in the Ferroxidase Site:
1.16.3.1;

Protein crystallography data

The structure of Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 3 Minutes Showing A Peroxide Anion As Bridging Species of Iron Ions in the Ferroxidase Site, PDB code: 7owy was solved by C.Pozzi, S.Ciambellotti, G.Tassone, P.Turano, S.Mangani, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 55.57 / 1.55
Space group F 4 3 2
Cell size a, b, c (Å), α, β, γ (°) 184.111, 184.111, 184.111, 90, 90, 90
R / Rfree (%) 15.3 / 17.2

Other elements in 7owy:

The structure of Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 3 Minutes Showing A Peroxide Anion As Bridging Species of Iron Ions in the Ferroxidase Site also contains other interesting chemical elements:

Iron (Fe) 9 atoms
Magnesium (Mg) 2 atoms

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 3 Minutes Showing A Peroxide Anion As Bridging Species of Iron Ions in the Ferroxidase Site (pdb code 7owy). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 4 binding sites of Chlorine where determined in the Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 3 Minutes Showing A Peroxide Anion As Bridging Species of Iron Ions in the Ferroxidase Site, PDB code: 7owy:
Jump to Chlorine binding site number: 1; 2; 3; 4;

Chlorine binding site 1 out of 4 in 7owy

Go back to Chlorine Binding Sites List in 7owy
Chlorine binding site 1 out of 4 in the Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 3 Minutes Showing A Peroxide Anion As Bridging Species of Iron Ions in the Ferroxidase Site


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 3 Minutes Showing A Peroxide Anion As Bridging Species of Iron Ions in the Ferroxidase Site within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl213

b:18.0
occ:0.25
 FE A:FE2202 2.5 16.1 0.2
CE1 A:HIS173 3.2 13.9 0.4
NE2 A:HIS173 3.3 13.4 0.6
CE1 A:HIS173 3.3 13.4 0.6
NE2 A:HIS173 3.4 13.5 0.4
CD2 A:LEU169 3.8 12.9 1.0
CD2 A:HIS173 4.4 13.9 0.6
ND1 A:HIS173 4.4 13.4 0.4
ND1 A:HIS173 4.5 13.7 0.6
O A:HOH490 4.6 22.8 0.2
CD2 A:HIS173 4.7 13.6 0.4

Chlorine binding site 2 out of 4 in 7owy

Go back to Chlorine Binding Sites List in 7owy
Chlorine binding site 2 out of 4 in the Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 3 Minutes Showing A Peroxide Anion As Bridging Species of Iron Ions in the Ferroxidase Site


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 3 Minutes Showing A Peroxide Anion As Bridging Species of Iron Ions in the Ferroxidase Site within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl214

b:16.4
occ:0.70
 O A:HOH526 3.2 28.4 1.0
O A:HOH519 3.2 49.3 1.0
N A:PHE12 3.2 10.6 1.0
N A:ASN11 3.4 10.7 1.0
O A:HOH574 3.5 40.5 1.0
O A:PHE12 3.5 11.7 1.0
O A:HOH530 3.6 26.0 1.0
CG A:ARG9 3.6 10.9 1.0
NE A:ARG9 3.6 12.2 1.0
CD A:ARG9 3.6 11.4 1.0
C A:GLN10 3.9 10.4 1.0
O A:HOH486 3.9 24.9 1.0
CA A:GLN10 4.0 10.4 1.0
C A:PHE12 4.0 10.6 1.0
CA A:PHE12 4.0 10.8 1.0
N A:GLN10 4.1 10.5 1.0
CA A:ASN11 4.1 10.5 1.0
C A:ASN11 4.1 9.9 1.0
CB A:PHE12 4.3 10.4 1.0
C A:ARG9 4.4 10.6 1.0
CB A:ARG9 4.6 10.6 1.0
O A:ARG9 4.6 11.9 1.0
O A:GLN10 4.7 10.5 1.0
CZ A:ARG9 4.9 11.9 1.0

Chlorine binding site 3 out of 4 in 7owy

Go back to Chlorine Binding Sites List in 7owy
Chlorine binding site 3 out of 4 in the Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 3 Minutes Showing A Peroxide Anion As Bridging Species of Iron Ions in the Ferroxidase Site


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 3 Minutes Showing A Peroxide Anion As Bridging Species of Iron Ions in the Ferroxidase Site within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl215

b:18.7
occ:0.70
 O A:HOH384 2.9 19.0 1.0
O A:HOH376 3.1 8.6 1.0
NZ A:LYS86 3.2 12.5 0.5
O A:HOH550 3.5 40.6 1.0
O A:HOH537 3.5 35.4 0.5
O A:HOH354 3.9 24.1 1.0
O A:HOH598 3.9 31.0 1.0
CB A:ASP84 4.0 8.8 1.0
CE A:LYS86 4.1 10.9 0.5
OD2 A:ASP84 4.2 10.1 1.0
NZ A:LYS86 4.3 11.0 0.5
CG A:ASP84 4.3 9.4 1.0
N A:ASP84 4.4 8.1 1.0
CE A:LYS86 4.7 11.8 0.5
O A:ASP84 4.7 7.9 1.0
CB A:GLN83 4.7 11.5 1.0
CA A:ASP84 4.8 8.0 1.0
CD A:LYS86 4.8 10.4 0.5
O A:HOH579 4.8 25.6 1.0
O A:HOH639 4.8 46.7 1.0
OE1 A:GLN83 4.9 17.4 1.0

Chlorine binding site 4 out of 4 in 7owy

Go back to Chlorine Binding Sites List in 7owy
Chlorine binding site 4 out of 4 in the Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 3 Minutes Showing A Peroxide Anion As Bridging Species of Iron Ions in the Ferroxidase Site


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 3 Minutes Showing A Peroxide Anion As Bridging Species of Iron Ions in the Ferroxidase Site within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl216

b:14.5
occ:0.70
 O A:HOH391 2.9 25.5 1.0
O A:HOH610 2.9 15.8 1.0
CA A:GLY125 3.6 11.3 1.0
C A:GLY125 3.7 11.7 1.0
CD A:PRO127 3.7 9.7 1.0
N A:PRO127 3.8 9.7 1.0
N A:ASP126 3.9 10.6 1.0
CB A:PRO127 4.0 9.3 1.0
CA A:PRO127 4.1 9.6 1.0
O A:GLY125 4.2 11.4 1.0
C A:ASP126 4.3 10.2 1.0
CG A:PRO127 4.3 9.3 1.0
O A:HOH619 4.4 21.4 0.5
O A:SER122 4.6 12.7 1.0
N A:GLY125 4.6 11.4 1.0
CA A:ASP126 4.7 10.5 1.0
O A:HOH616 4.7 20.9 0.5
O A:ASP126 4.8 10.3 1.0
O A:HOH433 4.9 25.1 1.0
CA A:SER122 5.0 11.9 1.0
O A:ALA121 5.0 11.8 1.0

Reference:

S.Ciambellotti, A.Pratesi, G.Tassone, P.Turano, S.Mangani, C.Pozzi. Iron Binding in the Ferroxidase Site of Human Mitochondrial Ferritin. Chemistry 2021.
ISSN: ISSN 0947-6539
PubMed: 34343376
DOI: 10.1002/CHEM.202102270
Page generated: Tue Jul 30 02:10:09 2024

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