Chlorine in PDB 7o6c: Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 15 Minutes Under Anaerobic Environment

Enzymatic activity of Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 15 Minutes Under Anaerobic Environment

All present enzymatic activity of Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 15 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 15 Minutes Under Anaerobic Environment, PDB code: 7o6c 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) 52.72 / 1.20
Space group F 4 3 2
Cell size a, b, c (Å), α, β, γ (°) 182.449, 182.449, 182.449, 90, 90, 90
R / Rfree (%) 12.1 / 14.3

Other elements in 7o6c:

The structure of Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 15 Minutes Under Anaerobic Environment also contains other interesting chemical elements:

Magnesium (Mg) 6 atoms
Iron (Fe) 8 atoms

Chlorine Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 11;

Binding sites:

The binding sites of Chlorine atom in the Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 15 Minutes Under Anaerobic Environment (pdb code 7o6c). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 11 binding sites of Chlorine where determined in the Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 15 Minutes Under Anaerobic Environment, PDB code: 7o6c:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Chlorine binding site 1 out of 11 in 7o6c

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Chlorine binding site 1 out of 11 in the Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 15 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 15 Minutes Under Anaerobic Environment within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl215

b:16.2
occ:0.70
 O A:HOH534 2.9 28.7 0.5
O A:HOH500 3.1 16.0 0.4
O A:HOH556 3.2 35.5 1.0
N A:PHE12 3.3 10.8 1.0
O A:HOH571 3.3 25.4 0.5
N A:ASN11 3.4 11.0 1.0
O A:PHE12 3.5 12.3 1.0
CD A:ARG9 3.6 14.0 1.0
CG A:ARG9 3.6 11.4 1.0
NE A:ARG9 3.6 13.8 1.0
O A:HOH586 3.7 33.5 1.0
C A:GLN10 3.9 10.4 1.0
CA A:GLN10 4.0 10.7 1.0
N A:GLN10 4.0 10.5 1.0
C A:PHE12 4.0 11.1 1.0
CA A:PHE12 4.1 10.7 1.0
O A:HOH500 4.1 17.8 0.6
CA A:ASN11 4.1 10.8 1.0
C A:ASN11 4.2 10.7 1.0
C A:ARG9 4.3 11.0 1.0
CB A:PHE12 4.3 10.9 1.0
CB A:ARG9 4.5 12.4 1.0
O A:ARG9 4.5 12.7 1.0
O A:GLN10 4.7 10.8 1.0
CZ A:ARG9 4.9 12.6 1.0
CA A:ARG9 5.0 10.7 1.0

Chlorine binding site 2 out of 11 in 7o6c

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Chlorine binding site 2 out of 11 in the Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 15 Minutes Under Anaerobic Environment


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

b:15.9
occ:0.70
 NZ A:LYS86 3.5 12.1 0.5
CE A:LYS86 3.9 13.9 0.3
CE A:LYS86 4.1 12.2 0.5
O A:HOH642 4.4 24.5 1.0
NZ A:LYS86 4.7 14.1 0.3
MG A:MG212 4.7 12.3 0.5

Chlorine binding site 3 out of 11 in 7o6c

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Chlorine binding site 3 out of 11 in the Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 15 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 15 Minutes Under Anaerobic Environment within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl217

b:18.4
occ:0.70
 O A:HOH616 2.8 16.6 1.0
O A:HOH355 2.9 27.8 1.0
CA A:GLY125 3.6 12.4 1.0
CD A:PRO127 3.7 12.3 1.0
C A:GLY125 3.7 11.7 1.0
N A:PRO127 3.8 11.0 1.0
N A:ASP126 3.8 11.2 1.0
CB A:PRO127 4.0 12.1 1.0
CA A:PRO127 4.1 11.0 1.0
O A:GLY125 4.2 12.3 1.0
C A:ASP126 4.2 10.1 1.0
CG A:PRO127 4.3 12.6 1.0
O A:HOH618 4.4 28.7 0.5
O A:HOH561 4.5 26.6 0.5
O A:SER122 4.5 13.5 1.0
N A:GLY125 4.6 11.7 1.0
CA A:ASP126 4.7 10.6 1.0
O A:HOH334 4.7 31.2 1.0
O A:ASP126 4.8 11.5 1.0
CA A:SER122 4.9 14.6 0.5
CA A:SER122 4.9 12.2 0.5
O A:ALA121 5.0 12.6 1.0

Chlorine binding site 4 out of 11 in 7o6c

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Chlorine binding site 4 out of 11 in the Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 15 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 15 Minutes Under Anaerobic Environment within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl218

b:24.1
occ:0.70
 O A:HOH521 3.1 28.3 0.7
N A:GLU140 3.1 14.7 1.0
N A:ASN139 3.2 14.1 1.0
O A:THR135 3.2 21.4 1.0
O A:HOH468 3.3 22.3 0.5
C A:TYR136 3.4 16.7 1.0
N A:TYR137 3.4 14.1 1.0
CB A:ASN139 3.5 17.4 1.0
C A:THR135 3.6 17.7 1.0
CA A:ASN139 3.6 14.3 1.0
CG A:GLU140 3.6 17.0 0.3
O A:GLU134 3.7 19.6 1.0
C A:ASN139 3.7 13.1 1.0
N A:TYR136 3.8 16.6 1.0
CA A:TYR136 3.8 17.8 1.0
C A:TYR137 3.8 13.6 1.0
O A:TYR136 3.8 20.3 1.0
N A:LEU138 3.8 13.7 1.0
CB A:GLU140 4.1 16.1 0.3
CB A:GLU140 4.1 19.9 0.7
CA A:TYR137 4.1 14.4 1.0
CA A:GLU140 4.1 18.3 0.7
CA A:GLU140 4.1 15.6 0.3
C A:LEU138 4.2 12.6 1.0
O A:TYR137 4.2 13.9 1.0
OE2 A:GLU140 4.4 20.0 0.3
CD A:GLU140 4.5 18.0 0.3
C A:GLU134 4.5 15.9 1.0
O A:HOH429 4.5 28.1 0.5
CA A:THR135 4.6 16.7 1.0
CA A:LEU138 4.6 13.1 1.0
O A:HOH449 4.7 24.6 0.5
O A:HOH408 4.8 22.9 1.0
CG A:ASN139 4.8 16.2 0.8
O A:HOH489 4.9 28.8 0.5
N A:THR135 4.9 15.7 1.0
O A:LEU133 4.9 13.4 1.0
O A:ASN139 4.9 14.1 1.0
MG A:MG214 5.0 18.1 0.4

Chlorine binding site 5 out of 11 in 7o6c

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Chlorine binding site 5 out of 11 in the Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 15 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 15 Minutes Under Anaerobic Environment within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl219

b:13.2
occ:0.80
 O A:HOH324 2.9 11.9 0.3
ND1 A:HIS151 2.9 11.5 1.0
O A:HOH324 3.0 20.3 0.7
ND2 A:ASN154 3.3 12.4 1.0
O A:HOH413 3.4 25.8 1.0
O A:ASP150 3.5 10.5 1.0
C A:ASP150 3.6 9.8 1.0
CE1 A:HIS151 3.6 12.6 1.0
N A:HIS151 3.7 9.5 1.0
CB A:ASP150 3.7 10.7 1.0
CA A:HIS151 3.8 10.5 1.0
CG2 A:THR174 4.0 12.0 0.4
CG2 A:THR174 4.0 12.4 0.6
CG A:HIS151 4.1 10.6 1.0
CE1 A:PHE170 4.1 12.8 1.0
CG A:ASN154 4.2 11.1 1.0
CA A:ASP150 4.3 10.3 1.0
CZ A:PHE170 4.3 12.4 1.0
CB A:ASN154 4.5 11.0 1.0
CB A:HIS151 4.5 10.5 1.0
O A:HOH481 4.7 16.2 1.0
CG A:ASP150 4.8 12.2 1.0
OG1 A:THR174 4.9 12.3 0.6
OG1 A:THR174 4.9 11.6 0.4
NE2 A:HIS151 4.9 13.2 1.0
OD2 A:ASP150 5.0 13.9 1.0
C A:HIS151 5.0 10.0 1.0
O A:HOH620 5.0 27.4 0.8

Chlorine binding site 6 out of 11 in 7o6c

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Chlorine binding site 6 out of 11 in the Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 15 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 15 Minutes Under Anaerobic Environment within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl220

b:20.1
occ:0.70
 O A:HOH651 2.9 24.0 0.5
O A:HOH605 3.1 28.7 0.5
N A:LEU165 3.4 11.6 1.0
O A:HOH404 3.5 18.7 0.5
CB A:LEU165 3.5 11.7 1.0
CB A:ALA163 3.7 14.8 1.0
CG A:LEU165 3.7 11.8 1.0
N A:GLY164 3.8 13.8 1.0
CD1 A:LEU165 4.0 13.3 1.0
C A:ALA163 4.0 14.1 1.0
CA A:LEU165 4.0 11.2 1.0
CA A:ALA163 4.1 14.4 1.0
C A:GLY164 4.5 12.9 1.0
O A:HOH668 4.5 34.9 0.5
O A:ALA163 4.5 18.0 1.0
N A:ALA166 4.5 10.9 1.0
CA A:GLY164 4.6 16.0 1.0
O A:HOH404 4.6 21.3 0.5
C A:LEU165 4.7 10.8 1.0

Chlorine binding site 7 out of 11 in 7o6c

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Chlorine binding site 7 out of 11 in the Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 15 Minutes Under Anaerobic Environment


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 7 of Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 15 Minutes Under Anaerobic Environment within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl221

b:24.3
occ:0.70
 O A:HOH580 2.7 28.2 0.6
O A:HOH623 2.8 28.3 1.0
O A:HOH421 3.0 16.7 0.7
CB A:ASN25 3.5 8.9 1.0
CG A:GLN83 3.7 14.5 1.0
O A:HOH592 3.8 20.4 0.7
CG A:ASN25 3.8 9.4 1.0
CA A:ARG22 3.9 11.6 0.6
CB A:GLN83 4.0 11.2 1.0
CA A:ARG22 4.0 10.7 0.4
CG A:ARG22 4.0 14.4 0.6
OD1 A:ASN25 4.0 10.5 1.0
O A:HOH654 4.1 34.6 0.5
O A:HOH440 4.3 15.4 0.3
CB A:ARG22 4.4 12.8 0.6
MG A:MG211 4.4 14.1 0.7
ND2 A:ASN25 4.4 10.1 1.0
O A:ASN21 4.4 9.8 1.0
CG A:ARG22 4.5 12.1 0.4
O A:ARG22 4.5 10.0 1.0
O A:HOH452 4.5 21.6 1.0
CB A:ARG22 4.6 11.2 0.4
N A:ARG22 4.7 9.7 1.0
C A:ARG22 4.8 9.3 1.0
O A:HOH546 4.8 28.6 0.5
O A:HOH390 4.9 19.9 1.0
C A:ASN21 4.9 9.6 1.0
O A:HOH661 4.9 22.0 0.7
CD A:ARG22 4.9 15.7 0.6
O A:HOH406 4.9 17.5 1.0
CA A:ASN25 5.0 9.1 1.0
CD A:GLN83 5.0 15.6 0.8

Chlorine binding site 8 out of 11 in 7o6c

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Chlorine binding site 8 out of 11 in the Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 15 Minutes Under Anaerobic Environment


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 8 of Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 15 Minutes Under Anaerobic Environment within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl222

b:21.5
occ:0.70
 O A:HOH390 2.8 19.9 1.0
O A:HOH558 3.0 37.5 0.3
NZ A:LYS86 3.0 14.1 0.3
O A:HOH546 3.6 28.6 0.5
O A:HOH623 3.7 28.3 1.0
O A:HOH363 4.0 26.9 1.0
CB A:ASP84 4.0 9.2 1.0
CE A:LYS86 4.1 12.2 0.5
NZ A:LYS86 4.2 12.1 0.5
OD2 A:ASP84 4.2 11.7 1.0
N A:ASP84 4.3 8.8 1.0
CG A:ASP84 4.3 9.4 1.0
CE A:LYS86 4.5 13.9 0.3
O A:ASP84 4.5 9.1 1.0
CB A:GLN83 4.6 11.2 1.0
CA A:ASP84 4.7 8.8 1.0
O A:HOH578 4.7 22.7 1.0
CD A:LYS86 4.8 11.8 0.5
NE2 A:GLN83 4.9 14.1 0.8
O A:HOH525 4.9 28.2 0.3

Chlorine binding site 9 out of 11 in 7o6c

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Chlorine binding site 9 out of 11 in the Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 15 Minutes Under Anaerobic Environment


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 9 of Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 15 Minutes Under Anaerobic Environment within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl223

b:19.2
occ:0.70
 O A:HOH629 2.6 36.0 1.0
O A:HOH401 2.9 15.9 1.0
O A:HOH336 3.3 23.4 0.6
O A:HOH485 3.3 30.4 0.5
O A:HOH632 3.4 20.4 0.3
NH2 A:ARG22 3.5 14.1 0.4
O A:GLU116 3.7 11.2 1.0
C A:GLU116 3.7 10.8 1.0
N A:LEU117 3.8 10.9 1.0
CA A:LEU117 3.8 11.3 0.7
CA A:LEU117 3.8 9.8 0.3
CB A:ALA19 3.8 11.9 1.0
CD2 A:LEU120 4.0 14.5 1.0
CB A:GLU116 4.1 12.3 1.0
CB A:LEU120 4.2 11.7 1.0
O A:HOH427 4.2 20.8 1.0
O A:HOH433 4.4 17.7 1.0
O A:HOH360 4.4 44.9 1.0
CG A:LEU117 4.5 12.1 0.7
CB A:LEU117 4.5 9.8 0.3
CB A:LEU117 4.5 11.8 0.7
CD1 A:LEU117 4.5 9.8 0.3
CA A:GLU116 4.6 11.4 1.0
CZ A:ARG22 4.7 13.3 0.4
CG A:LEU120 4.7 13.0 1.0
NH2 A:ARG22 4.9 18.2 0.6
O A:HOH632 4.9 25.9 0.7
C A:LEU117 5.0 10.9 1.0
O A:SER113 5.0 11.3 1.0
CA A:ALA19 5.0 10.7 1.0

Chlorine binding site 10 out of 11 in 7o6c

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Chlorine binding site 10 out of 11 in the Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 15 Minutes Under Anaerobic Environment


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 10 of Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 15 Minutes Under Anaerobic Environment within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl224

b:18.2
occ:0.70
 O A:HOH639 2.8 30.9 1.0
O A:HOH415 2.9 13.6 1.0
ND1 A:HIS118 2.9 11.6 1.0
CA A:ALA119 3.6 11.8 1.0
N A:ALA119 3.6 11.2 1.0
CE1 A:HIS118 3.6 12.5 1.0
OG A:SER122 3.7 12.8 0.5
C A:HIS118 3.8 11.6 1.0
O A:HIS118 3.9 11.5 1.0
CG A:HIS118 3.9 10.5 1.0
CB A:ALA119 4.0 13.0 1.0
CB A:HIS118 4.3 11.2 1.0
CB A:SER122 4.4 12.5 0.5
CB A:SER122 4.4 15.3 0.5
CA A:HIS118 4.7 11.4 1.0
O A:HOH306 4.7 26.5 1.0
O A:LEU115 4.8 11.8 1.0
C A:ALA119 4.8 11.2 1.0
NE2 A:HIS118 4.8 12.2 1.0
OG A:SER122 4.9 16.2 0.5

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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