Atomistry » Chlorine » PDB 4xpf-4y14 » 4y08
Atomistry »
  Chlorine »
    PDB 4xpf-4y14 »
      4y08 »

Chlorine in PDB 4y08: One Minute Iron Loaded Human H Ferritin

Enzymatic activity of One Minute Iron Loaded Human H Ferritin

All present enzymatic activity of One Minute Iron Loaded Human H Ferritin:
1.16.3.1;

Protein crystallography data

The structure of One Minute Iron Loaded Human H Ferritin, PDB code: 4y08 was solved by C.Pozzi, F.Di Pisa, S.Mangani, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 27.76 / 1.34
Space group F 4 3 2
Cell size a, b, c (Å), α, β, γ (°) 184.140, 184.140, 184.140, 90.00, 90.00, 90.00
R / Rfree (%) 16.2 / 17.3

Other elements in 4y08:

The structure of One Minute Iron Loaded Human H Ferritin also contains other interesting chemical elements:

Magnesium (Mg) 5 atoms
Iron (Fe) 5 atoms

Chlorine Binding Sites:

The binding sites of Chlorine atom in the One Minute Iron Loaded Human H Ferritin (pdb code 4y08). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 9 binding sites of Chlorine where determined in the One Minute Iron Loaded Human H Ferritin, PDB code: 4y08:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9;

Chlorine binding site 1 out of 9 in 4y08

Go back to Chlorine Binding Sites List in 4y08
Chlorine binding site 1 out of 9 in the One Minute Iron Loaded Human H Ferritin


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of One Minute Iron Loaded Human H Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl205

b:11.2
occ:0.70
O A:HOH394 2.9 30.5 1.0
O A:HOH392 3.2 19.9 1.0
O A:HOH516 3.2 26.3 1.0
NE2 A:GLN75 3.2 7.8 1.0
O A:HOH402 4.0 20.2 1.0
CE A:LYS71 4.1 8.0 0.5
NZ A:LYS71 4.2 8.8 0.5
CD A:GLN75 4.2 7.7 1.0
O A:HOH522 4.3 24.0 1.0
CE A:LYS71 4.3 8.4 0.5
OE1 A:GLN75 4.3 8.0 1.0
O A:HOH563 4.6 36.6 1.0
O A:HOH451 4.7 9.4 1.0

Chlorine binding site 2 out of 9 in 4y08

Go back to Chlorine Binding Sites List in 4y08
Chlorine binding site 2 out of 9 in the One Minute Iron Loaded Human H Ferritin


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of One Minute Iron Loaded Human H Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl206

b:15.2
occ:0.80
NE2 A:GLN83 2.6 12.8 0.7
N A:ASP84 3.1 7.8 1.0
CG A:ASP84 3.5 7.6 1.0
OD1 A:ASP84 3.5 7.5 1.0
CB A:GLN83 3.6 10.1 1.0
CA A:GLN83 3.7 9.1 1.0
O A:HOH407 3.8 45.8 1.0
OD2 A:ASP84 3.8 8.3 1.0
CD A:GLN83 3.8 12.1 0.7
CB A:ASP84 3.9 7.6 1.0
C A:GLN83 3.9 8.3 1.0
CA A:ASP84 4.1 7.5 1.0
CG A:GLN83 4.3 11.4 1.0
O A:HOH319 4.5 9.0 0.8
O A:HOH307 4.5 12.1 0.4
O A:HOH336 4.9 14.9 1.0
OE1 A:GLN83 4.9 12.9 0.7

Chlorine binding site 3 out of 9 in 4y08

Go back to Chlorine Binding Sites List in 4y08
Chlorine binding site 3 out of 9 in the One Minute Iron Loaded Human H Ferritin


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of One Minute Iron Loaded Human H Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl207

b:16.4
occ:0.70
O A:HOH570 2.9 36.0 1.0
O A:HOH539 3.1 28.0 1.0
N A:GLN14 3.2 8.5 1.0
O A:HOH616 3.2 37.5 1.0
CD2 A:HIS13 3.7 9.8 1.0
CG A:HIS13 3.8 9.3 1.0
CA A:HIS13 3.8 8.5 1.0
NE2 A:HIS13 3.8 10.1 1.0
ND1 A:HIS13 3.9 9.4 1.0
CB A:GLN14 3.9 9.1 1.0
O A:HOH529 4.0 28.2 1.0
CE1 A:HIS13 4.0 9.7 1.0
C A:HIS13 4.0 8.5 1.0
O A:HOH559 4.0 33.4 1.0
CA A:GLN14 4.1 8.7 1.0
CB A:HIS13 4.4 9.0 1.0
O A:TYR12 4.5 8.3 1.0
N A:HIS13 4.9 8.1 1.0

Chlorine binding site 4 out of 9 in 4y08

Go back to Chlorine Binding Sites List in 4y08
Chlorine binding site 4 out of 9 in the One Minute Iron Loaded Human H Ferritin


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of One Minute Iron Loaded Human H Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl208

b:8.7
occ:0.25
FE A:FE2204 2.5 13.8 0.1
NE2 A:HIS173 3.2 14.0 1.0
CD2 A:LEU169 4.0 8.2 1.0
CE1 A:HIS173 4.1 13.2 1.0
CD2 A:HIS173 4.1 13.0 1.0
CD1 A:LEU169 4.9 8.4 1.0

Chlorine binding site 5 out of 9 in 4y08

Go back to Chlorine Binding Sites List in 4y08
Chlorine binding site 5 out of 9 in the One Minute Iron Loaded Human H Ferritin


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of One Minute Iron Loaded Human H Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl209

b:12.4
occ:0.80
O A:HOH400 2.9 32.2 1.0
O A:HOH529 3.1 28.2 1.0
O A:HOH539 3.2 28.0 1.0
N A:TYR12 3.3 7.8 1.0
N A:ASN11 3.4 8.1 1.0
O A:TYR12 3.5 8.3 1.0
CD A:ARG9 3.6 9.4 1.0
CG A:ARG9 3.7 9.0 1.0
NE A:ARG9 3.7 9.4 1.0
C A:GLN10 3.9 8.2 1.0
O A:HOH390 4.0 17.9 1.0
CA A:GLN10 4.0 8.5 1.0
C A:TYR12 4.1 8.0 1.0
N A:GLN10 4.1 8.4 1.0
CA A:ASN11 4.1 8.0 1.0
CA A:TYR12 4.1 7.9 1.0
C A:ASN11 4.2 7.9 1.0
O A:HOH598 4.3 40.0 1.0
C A:ARG9 4.4 8.6 1.0
CB A:TYR12 4.4 7.9 1.0
CB A:ARG9 4.6 8.8 1.0
O A:ARG9 4.6 9.1 1.0
O A:GLN10 4.8 7.9 1.0
CZ A:ARG9 4.9 9.4 1.0

Chlorine binding site 6 out of 9 in 4y08

Go back to Chlorine Binding Sites List in 4y08
Chlorine binding site 6 out of 9 in the One Minute Iron Loaded Human H Ferritin


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 6 of One Minute Iron Loaded Human H Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl210

b:15.7
occ:0.15
FE A:FE2204 3.1 13.8 0.1
O A:HOH387 3.5 35.4 1.0
CE1 A:HIS173 3.6 13.2 1.0
ND1 A:HIS173 4.2 13.1 1.0
NE2 A:HIS173 4.6 14.0 1.0

Chlorine binding site 7 out of 9 in 4y08

Go back to Chlorine Binding Sites List in 4y08
Chlorine binding site 7 out of 9 in the One Minute Iron Loaded Human H Ferritin


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 7 of One Minute Iron Loaded Human H Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl211

b:18.9
occ:0.70
O A:HOH553 2.9 31.6 1.0
O A:HOH512 2.9 27.5 1.0
O A:HOH603 3.1 12.0 0.5
CB A:ASN25 3.5 6.8 1.0
CG A:GLN83 3.8 11.4 1.0
CG A:ASN25 3.8 6.9 1.0
O A:HOH564 3.9 16.0 0.5
CA A:ARG22 4.0 7.8 1.0
OD1 A:ASN25 4.1 7.1 1.0
CB A:GLN83 4.1 10.1 1.0
CG A:ARG22 4.3 10.7 1.0
ND2 A:ASN25 4.4 7.2 1.0
MG A:MG218 4.5 12.7 0.5
CB A:ARG22 4.5 9.0 1.0
O A:ASN21 4.5 7.1 1.0
O A:ARG22 4.5 7.3 1.0
N A:ARG22 4.7 7.3 1.0
C A:ARG22 4.8 7.4 1.0
O A:HOH608 4.8 15.7 0.5
C A:ASN21 4.9 7.1 1.0
O A:HOH602 4.9 22.2 1.0
CA A:ASN25 5.0 6.8 1.0

Chlorine binding site 8 out of 9 in 4y08

Go back to Chlorine Binding Sites List in 4y08
Chlorine binding site 8 out of 9 in the One Minute Iron Loaded Human H Ferritin


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 8 of One Minute Iron Loaded Human H Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl212

b:15.2
occ:0.80
O A:HOH381 2.8 13.8 1.0
O A:HOH522 3.0 24.0 1.0
NE2 A:GLN75 3.1 7.8 1.0
CG A:GLN75 3.7 7.5 1.0
CD A:GLN75 3.9 7.7 1.0
NZ A:LYS71 4.2 8.2 0.5
CE A:LYS71 4.5 8.4 0.5
CE A:LYS71 4.6 8.0 0.5
CB A:GLN75 4.9 7.2 1.0

Chlorine binding site 9 out of 9 in 4y08

Go back to Chlorine Binding Sites List in 4y08
Chlorine binding site 9 out of 9 in the One Minute Iron Loaded Human H Ferritin


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 9 of One Minute Iron Loaded Human H Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl213

b:13.4
occ:0.70
O A:HOH360 2.8 26.5 1.0
O A:HOH433 2.9 10.8 1.0
CA A:ASN125 3.5 9.5 1.0
C A:ASN125 3.7 8.8 1.0
CD A:PRO127 3.7 7.2 1.0
N A:ASP126 3.8 8.0 1.0
N A:PRO127 3.8 7.1 1.0
O A:HOH416 4.0 18.1 1.0
CB A:PRO127 4.0 7.3 1.0
CA A:PRO127 4.1 7.2 1.0
CB A:ASN125 4.2 11.0 1.0
O A:ASN125 4.2 8.4 1.0
CG A:PRO127 4.3 7.2 1.0
C A:ASP126 4.3 7.5 1.0
OD1 A:ASN125 4.6 14.4 1.0
N A:ASN125 4.7 9.3 1.0
CA A:ASP126 4.7 7.6 1.0
O A:THR122 4.7 9.5 1.0
CG A:ASN125 4.9 12.4 1.0
O A:ASP126 4.9 7.3 1.0

Reference:

C.Pozzi, F.Di Pisa, C.Bernacchioni, S.Ciambellotti, P.Turano, S.Mangani. Iron Binding to Human Heavy-Chain Ferritin. Acta Crystallogr.,Sect.D V. 71 1909 2015.
ISSN: ESSN 1399-0047
PubMed: 26327381
DOI: 10.1107/S1399004715013073
Page generated: Fri Jul 11 23:08:19 2025

Last articles

Fe in 7P4Q
Fe in 7P46
Fe in 7P5T
Fe in 7P4M
Fe in 7P4P
Fe in 7P0P
Fe in 7P0R
Fe in 7P3L
Fe in 7P2C
Fe in 7P17
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy