Chlorine in PDB 7o6a: Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 5 Minutes Under Anaerobic Environment

Enzymatic activity of Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 5 Minutes Under Anaerobic Environment

All present enzymatic activity of Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 5 Minutes Under Anaerobic Environment:
1.16.3.1;

Protein crystallography data

The structure of Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 5 Minutes Under Anaerobic Environment, PDB code: 7o6a 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) 106.04 / 1.40
Space group F 4 3 2
Cell size a, b, c (Å), α, β, γ (°) 183.675, 183.675, 183.675, 90, 90, 90
R / Rfree (%) 13.2 / 16.3

Other elements in 7o6a:

The structure of Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 5 Minutes Under Anaerobic Environment also contains other interesting chemical elements:

Iron (Fe) 9 atoms
Magnesium (Mg) 3 atoms

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 5 Minutes Under Anaerobic Environment (pdb code 7o6a). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 6 binding sites of Chlorine where determined in the Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 5 Minutes Under Anaerobic Environment, PDB code: 7o6a:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5; 6;

Chlorine binding site 1 out of 6 in 7o6a

Go back to Chlorine Binding Sites List in 7o6a
Chlorine binding site 1 out of 6 in the Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 5 Minutes Under Anaerobic Environment


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 5 Minutes Under Anaerobic Environment within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl213

b:25.4
occ:1.00
 O A:HOH531 2.9 36.8 0.6
O A:HOH536 3.1 35.5 1.0
N A:PHE12 3.2 14.2 1.0
N A:ASN11 3.4 14.6 1.0
O A:PHE12 3.5 15.8 1.0
O A:HOH601 3.5 28.7 0.5
CG A:ARG9 3.6 15.0 1.0
CD A:ARG9 3.6 17.3 1.0
NE A:ARG9 3.6 16.7 1.0
O A:HOH564 3.7 30.3 1.0
C A:GLN10 3.9 13.6 1.0
CA A:GLN10 4.0 13.2 1.0
C A:PHE12 4.0 14.0 1.0
CA A:PHE12 4.0 13.7 1.0
N A:GLN10 4.1 12.8 1.0
CA A:ASN11 4.1 13.7 1.0
C A:ASN11 4.1 13.3 1.0
CB A:PHE12 4.3 13.7 1.0
C A:ARG9 4.3 13.6 1.0
O A:HOH562 4.4 54.1 1.0
CB A:ARG9 4.5 14.7 1.0
O A:ARG9 4.6 16.9 1.0
O A:GLN10 4.7 13.8 1.0
CZ A:ARG9 4.8 15.1 1.0

Chlorine binding site 2 out of 6 in 7o6a

Go back to Chlorine Binding Sites List in 7o6a
Chlorine binding site 2 out of 6 in the Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 5 Minutes Under Anaerobic Environment


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 5 Minutes Under Anaerobic Environment within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl214

b:21.0
occ:0.80
 O A:HOH628 2.9 20.6 1.0
O A:HOH381 2.9 26.5 0.5
O A:HOH381 3.0 21.9 0.5
CA A:GLY125 3.6 15.0 1.0
CD A:PRO127 3.7 14.4 1.0
C A:GLY125 3.7 14.9 1.0
N A:PRO127 3.7 13.4 1.0
N A:ASP126 3.8 14.1 1.0
CB A:PRO127 4.0 14.8 1.0
CA A:PRO127 4.0 14.6 1.0
O A:GLY125 4.2 15.6 1.0
C A:ASP126 4.2 13.3 1.0
CG A:PRO127 4.3 14.1 1.0
O A:HOH669 4.3 33.6 1.0
O A:HOH630 4.5 25.0 0.5
O A:SER122 4.6 16.8 1.0
N A:GLY125 4.6 15.4 1.0
CA A:ASP126 4.6 12.6 1.0
O A:ASP126 4.8 13.6 1.0
O A:HOH435 4.9 33.1 1.0
CA A:SER122 5.0 16.4 0.3
CA A:SER122 5.0 15.0 0.7
O A:ALA121 5.0 15.5 1.0

Chlorine binding site 3 out of 6 in 7o6a

Go back to Chlorine Binding Sites List in 7o6a
Chlorine binding site 3 out of 6 in the Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 5 Minutes Under Anaerobic Environment


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 5 Minutes Under Anaerobic Environment within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl215

b:17.9
occ:0.60
 NE2 A:GLN83 2.7 17.8 1.0
N A:ASP84 3.1 11.8 1.0
CL A:CL216 3.1 20.1 0.6
CG A:ASP84 3.5 12.4 1.0
OD1 A:ASP84 3.5 12.6 1.0
CB A:GLN83 3.6 15.0 1.0
CA A:GLN83 3.7 11.6 1.0
OD2 A:ASP84 3.8 14.8 1.0
O A:HOH520 3.8 33.7 0.6
CB A:ASP84 3.9 12.1 1.0
CD A:GLN83 3.9 19.6 1.0
C A:GLN83 3.9 11.6 1.0
O A:HOH556 3.9 30.9 0.6
CA A:ASP84 4.1 11.8 1.0
CG A:GLN83 4.2 15.9 1.0
O A:HOH395 4.6 20.9 0.5
O A:HOH390 4.8 23.2 1.0
FE A:FE2208 4.8 23.4 0.3
OE1 A:GLN83 4.9 25.9 1.0

Chlorine binding site 4 out of 6 in 7o6a

Go back to Chlorine Binding Sites List in 7o6a
Chlorine binding site 4 out of 6 in the Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 5 Minutes Under Anaerobic Environment


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 5 Minutes Under Anaerobic Environment within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl216

b:20.1
occ:0.60
 O A:HOH390 2.8 23.2 1.0
NZ A:LYS86 3.1 16.2 0.4
O A:HOH575 3.1 39.1 0.3
CL A:CL215 3.1 17.9 0.6
O A:HOH556 3.4 30.9 0.6
O A:HOH333 3.8 31.7 1.0
O A:HOH620 3.9 31.9 1.0
CB A:ASP84 4.0 12.1 1.0
CE A:LYS86 4.1 17.3 0.6
OD2 A:ASP84 4.1 14.8 1.0
NZ A:LYS86 4.3 17.2 0.6
CG A:ASP84 4.3 12.4 1.0
N A:ASP84 4.4 11.8 1.0
CE A:LYS86 4.5 15.7 0.4
O A:ASP84 4.6 12.1 1.0
O A:HOH571 4.7 28.9 1.0
CB A:GLN83 4.7 15.0 1.0
O A:HOH520 4.7 33.7 0.6
CA A:ASP84 4.7 11.8 1.0
CD A:LYS86 4.8 16.3 0.6
O A:HOH665 4.8 35.7 0.5
NE2 A:GLN83 5.0 17.8 1.0

Chlorine binding site 5 out of 6 in 7o6a

Go back to Chlorine Binding Sites List in 7o6a
Chlorine binding site 5 out of 6 in the Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 5 Minutes Under Anaerobic Environment


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 5 Minutes Under Anaerobic Environment within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl217

b:19.9
occ:0.80
 ND1 A:HIS151 2.9 15.1 1.0
O A:HOH324 3.0 32.1 1.0
ND2 A:ASN154 3.3 14.8 1.0
O A:HOH372 3.5 35.3 1.0
O A:ASP150 3.5 13.3 1.0
C A:ASP150 3.5 12.7 1.0
CE1 A:HIS151 3.6 14.7 1.0
N A:HIS151 3.6 13.1 1.0
CA A:HIS151 3.7 12.7 1.0
CB A:ASP150 3.7 13.3 1.0
CG2 A:THR174 4.1 15.4 1.0
CG A:HIS151 4.1 13.0 1.0
CE1 A:PHE170 4.1 16.3 1.0
CG A:ASN154 4.1 14.1 1.0
CA A:ASP150 4.3 13.3 1.0
CZ A:PHE170 4.3 15.2 1.0
CB A:ASN154 4.4 14.9 1.0
CB A:HIS151 4.5 12.5 1.0
O A:HOH632 4.5 29.5 0.5
O A:HOH477 4.7 18.4 1.0
NE2 A:HIS151 4.9 16.7 1.0
CG A:ASP150 4.9 14.9 1.0
C A:HIS151 4.9 12.9 1.0
OG1 A:THR174 4.9 16.9 1.0

Chlorine binding site 6 out of 6 in 7o6a

Go back to Chlorine Binding Sites List in 7o6a
Chlorine binding site 6 out of 6 in the Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 5 Minutes Under Anaerobic Environment


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 6 of Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 5 Minutes Under Anaerobic Environment within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl218

b:28.1
occ:0.60
 ND1 A:HIS153 3.1 15.6 1.0
O A:HOH597 3.9 26.5 0.5
CA A:HIS153 4.0 14.0 1.0
CE1 A:HIS153 4.0 15.3 1.0
CG A:HIS153 4.0 13.7 1.0
CB A:HIS153 4.1 13.6 1.0
CG1 A:VAL156 4.4 17.6 1.0
CB A:VAL156 4.4 14.8 1.0
O A:HIS153 4.5 13.9 1.0
C A:HIS153 4.8 13.1 1.0
O A:HOH549 4.8 22.1 0.5
CG2 A:VAL156 4.9 15.9 1.0
N A:HIS153 4.9 12.8 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 01:17:21 2024

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