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Zinc in PDB 2cih: Recombinant Human H Ferritin, K86Q and E27D Mutant, Soaked with Zn

Enzymatic activity of Recombinant Human H Ferritin, K86Q and E27D Mutant, Soaked with Zn

All present enzymatic activity of Recombinant Human H Ferritin, K86Q and E27D Mutant, Soaked with Zn:
1.16.3.1;

Protein crystallography data

The structure of Recombinant Human H Ferritin, K86Q and E27D Mutant, Soaked with Zn, PDB code: 2cih was solved by L.Toussaint, R.R.Crichton, J.P.Declercq, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 104.26 / 1.50
Space group F 4 3 2
Cell size a, b, c (Å), α, β, γ (°) 180.823, 180.823, 180.823, 90.00, 90.00, 90.00
R / Rfree (%) 16.7 / 19.8

Zinc Binding Sites:

The binding sites of Zinc atom in the Recombinant Human H Ferritin, K86Q and E27D Mutant, Soaked with Zn (pdb code 2cih). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 10 binding sites of Zinc where determined in the Recombinant Human H Ferritin, K86Q and E27D Mutant, Soaked with Zn, PDB code: 2cih:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Zinc binding site 1 out of 10 in 2cih

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Zinc binding site 1 out of 10 in the Recombinant Human H Ferritin, K86Q and E27D Mutant, Soaked with Zn


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Recombinant Human H Ferritin, K86Q and E27D Mutant, Soaked with Zn within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn210

b:16.1
occ:0.50
 O A:HOH2318 2.1 17.6 0.5
OE1 A:GLN86 2.2 16.1 1.0
CD A:GLN86 3.2 15.1 1.0
NE2 A:GLN86 3.6 16.1 1.0
O A:HOH2190 3.8 39.7 0.2
O A:HOH2199 4.2 16.4 1.0
O A:HOH2193 4.4 33.1 1.0
CG A:GLN86 4.6 12.7 1.0
CB A:GLN86 5.0 11.2 1.0

Zinc binding site 2 out of 10 in 2cih

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Zinc binding site 2 out of 10 in the Recombinant Human H Ferritin, K86Q and E27D Mutant, Soaked with Zn


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Recombinant Human H Ferritin, K86Q and E27D Mutant, Soaked with Zn within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn211

b:30.2
occ:0.33
 O A:HOH2319 2.2 20.3 1.0
O A:HOH2320 2.2 34.3 1.0
O A:HOH2259 2.7 48.0 0.3
OD1 A:ASP131 3.6 18.8 1.0
O A:HOH2176 3.8 33.4 0.3
OG1 A:THR135 3.9 17.3 1.0
OE1 A:GLU134 4.4 26.2 1.0
CG A:ASP131 4.7 17.6 1.0

Zinc binding site 3 out of 10 in 2cih

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Zinc binding site 3 out of 10 in the Recombinant Human H Ferritin, K86Q and E27D Mutant, Soaked with Zn


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Recombinant Human H Ferritin, K86Q and E27D Mutant, Soaked with Zn within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn212

b:14.8
occ:1.00
 OD1 A:ASP27 2.0 11.7 1.0
OE1 A:GLU62 2.0 13.3 1.0
ND1 A:HIS65 2.2 11.6 1.0
O A:HOH2321 2.2 14.8 1.0
CE1 A:HIS65 3.0 15.0 1.0
CG A:ASP27 3.0 12.4 1.0
CD A:GLU62 3.1 12.9 1.0
CG A:HIS65 3.3 11.7 1.0
ZN A:ZN213 3.5 15.2 1.0
OD2 A:ASP27 3.5 14.8 1.0
OE2 A:GLU62 3.6 14.8 1.0
CB A:HIS65 3.6 10.6 1.0
O A:HOH2273 4.0 19.0 1.0
OE1 A:GLN141 4.2 14.4 1.0
CG1 A:VAL110 4.2 12.3 1.0
NE2 A:HIS65 4.2 15.2 1.0
CB A:ASP27 4.3 8.5 1.0
CD2 A:HIS65 4.3 14.0 1.0
CG A:GLU62 4.4 10.6 1.0
CA A:GLU62 4.5 10.2 1.0
CB A:GLU62 4.6 9.3 1.0
O A:HOH2322 4.7 22.7 1.0
CA A:ASP27 4.8 8.4 1.0
OE1 A:GLU107 5.0 11.7 1.0
O A:GLU62 5.0 10.3 1.0

Zinc binding site 4 out of 10 in 2cih

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Zinc binding site 4 out of 10 in the Recombinant Human H Ferritin, K86Q and E27D Mutant, Soaked with Zn


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Recombinant Human H Ferritin, K86Q and E27D Mutant, Soaked with Zn within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn213

b:15.2
occ:1.00
 OE2 A:GLU62 1.9 14.8 1.0
O A:HOH2322 2.0 22.7 1.0
OE1 A:GLU107 2.1 11.7 1.0
OE2 A:GLU107 2.3 15.4 1.0
CD A:GLU107 2.5 12.6 1.0
CD A:GLU62 2.9 12.9 1.0
OE1 A:GLU62 3.2 13.3 1.0
ZN A:ZN212 3.5 14.8 1.0
O A:HOH2156 3.8 32.6 1.0
OE1 A:GLN141 3.8 14.4 1.0
CG A:GLU107 4.1 10.1 1.0
O A:HOH2157 4.1 42.1 1.0
NE2 A:GLN141 4.2 13.2 1.0
CE1 A:HIS65 4.2 15.0 1.0
CG A:GLU62 4.2 10.6 1.0
O A:HOH2163 4.3 38.5 1.0
CD A:GLN141 4.4 11.9 1.0
ND1 A:HIS65 4.4 11.6 1.0
CE2 A:TYR34 4.5 9.3 1.0
OH A:TYR34 4.7 14.8 1.0
O A:HOH2321 4.9 14.8 1.0
CB A:GLU107 4.9 10.2 1.0

Zinc binding site 5 out of 10 in 2cih

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Zinc binding site 5 out of 10 in the Recombinant Human H Ferritin, K86Q and E27D Mutant, Soaked with Zn


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Recombinant Human H Ferritin, K86Q and E27D Mutant, Soaked with Zn within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn214

b:23.0
occ:0.25
 O A:HOH2323 2.2 6.8 0.2
NE2 A:HIS173 2.2 20.3 1.0
CE1 A:HIS173 3.0 20.3 1.0
CD2 A:HIS173 3.3 18.4 1.0
ND1 A:HIS173 4.2 19.2 1.0
CG A:HIS173 4.4 16.3 1.0

Zinc binding site 6 out of 10 in 2cih

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Zinc binding site 6 out of 10 in the Recombinant Human H Ferritin, K86Q and E27D Mutant, Soaked with Zn


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Recombinant Human H Ferritin, K86Q and E27D Mutant, Soaked with Zn within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn215

b:32.3
occ:1.00
 O A:HOH2324 2.2 36.5 1.0
NE2 A:HIS60 2.3 22.0 1.0
CE1 A:HIS60 2.4 23.5 1.0
CD2 A:HIS60 3.6 22.2 1.0
ND1 A:HIS60 3.6 22.3 1.0
CG A:HIS60 4.2 16.3 1.0
O A:HOH2085 4.3 54.7 1.0
CD2 A:LEU56 4.5 11.9 1.0
CD1 A:LEU56 4.6 16.1 1.0
CG A:LEU56 4.7 13.0 1.0

Zinc binding site 7 out of 10 in 2cih

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Zinc binding site 7 out of 10 in the Recombinant Human H Ferritin, K86Q and E27D Mutant, Soaked with Zn


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Recombinant Human H Ferritin, K86Q and E27D Mutant, Soaked with Zn within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn216

b:42.1
occ:1.00
 SG A:CYS130 2.1 12.0 0.5
NE2 A:HIS118 2.3 18.8 1.0
O A:HOH2325 2.3 35.5 1.0
CE1 A:HIS118 2.3 15.1 1.0
OE2 A:GLU134 2.8 25.8 1.0
ZN A:ZN220 3.1 31.1 0.5
CB A:CYS130 3.2 13.6 1.0
SG A:CYS130 3.3 15.9 0.5
O A:HOH2329 3.3 70.8 0.3
ND1 A:HIS118 3.6 17.0 1.0
CD2 A:HIS118 3.6 19.0 1.0
OG1 A:THR122 3.9 18.6 1.0
CD A:GLU134 3.9 23.0 1.0
O A:HOH2328 3.9 34.1 1.0
CG A:HIS118 4.2 15.8 1.0
O A:HOH2327 4.3 24.7 0.3
CA A:CYS130 4.3 12.5 1.0
OE1 A:GLU134 4.6 26.2 1.0
C A:CYS130 4.7 12.2 1.0
CG A:GLU134 4.8 18.1 1.0
ZN A:ZN220 4.8 26.7 0.5
O A:CYS130 4.9 11.5 1.0

Zinc binding site 8 out of 10 in 2cih

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Zinc binding site 8 out of 10 in the Recombinant Human H Ferritin, K86Q and E27D Mutant, Soaked with Zn


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of Recombinant Human H Ferritin, K86Q and E27D Mutant, Soaked with Zn within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn217

b:45.4
occ:1.00
 NE2 A:HIS57 2.2 22.8 1.0
OE1 A:GLU61 2.3 29.8 1.0
O A:HOH2326 2.4 38.5 1.0
O A:HOH2155 2.5 29.2 1.0
CE1 A:HIS57 3.2 24.1 1.0
CD2 A:HIS57 3.2 21.2 1.0
CD A:GLU61 3.3 28.8 1.0
OE2 A:GLU61 3.6 31.9 1.0
O A:HOH2280 4.1 40.4 1.0
O A:HOH2161 4.2 60.1 1.0
ND1 A:HIS57 4.3 24.4 1.0
CG A:HIS57 4.3 17.7 1.0
O A:HOH2162 4.3 65.7 1.0
OE1 A:GLN58 4.5 20.0 1.0
CG A:GLU61 4.6 19.7 1.0
O A:HOH2154 4.8 62.3 1.0
CB A:GLU61 4.9 13.3 1.0

Zinc binding site 9 out of 10 in 2cih

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Zinc binding site 9 out of 10 in the Recombinant Human H Ferritin, K86Q and E27D Mutant, Soaked with Zn


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 9 of Recombinant Human H Ferritin, K86Q and E27D Mutant, Soaked with Zn within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn220

b:31.1
occ:0.50
 ZN A:ZN220 0.0 31.1 0.5
ZN A:ZN220 2.1 26.7 0.5
OE2 A:GLU134 2.1 25.8 1.0
O A:HOH2327 2.7 24.7 0.3
O A:HOH2328 3.0 34.1 1.0
CD A:GLU134 3.0 23.0 1.0
O A:HOH2329 3.1 70.8 0.3
ZN A:ZN216 3.1 42.1 1.0
OE1 A:GLU134 3.3 26.2 1.0
SG A:CYS130 3.9 12.0 0.5
NE2 A:HIS118 4.1 18.8 1.0
CG A:GLU134 4.3 18.1 1.0
CE1 A:HIS118 4.3 15.1 1.0
O A:HOH2259 4.6 48.0 0.3
O A:HOH2325 5.0 35.5 1.0

Zinc binding site 10 out of 10 in 2cih

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Zinc binding site 10 out of 10 in the Recombinant Human H Ferritin, K86Q and E27D Mutant, Soaked with Zn


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 10 of Recombinant Human H Ferritin, K86Q and E27D Mutant, Soaked with Zn within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn220

b:26.7
occ:0.50
 ZN A:ZN220 0.0 26.7 0.5
O A:HOH2327 2.0 24.7 0.3
ZN A:ZN220 2.1 31.1 0.5
OE1 A:GLU134 2.2 26.2 1.0
CD A:GLU134 2.8 23.0 1.0
O A:HOH2259 2.8 48.0 0.3
OE2 A:GLU134 2.9 25.8 1.0
O A:HOH2320 3.7 34.3 1.0
CG A:GLU134 4.2 18.1 1.0
O A:HOH2329 4.5 70.8 0.3
SG A:CYS130 4.7 12.0 0.5
ZN A:ZN216 4.8 42.1 1.0
CB A:GLU134 4.8 14.3 1.0
O A:HOH2328 4.9 34.1 1.0

Reference:

L.Toussaint, L.Bertrand, L.Hue, R.R.Crichton, J.P.Declercq. High-Resolution X-Ray Structures of Human Apoferritin H-Chain Mutants Correlated with Their Activity and Metal-Binding Sites. J.Mol.Biol. V. 365 440 2007.
ISSN: ISSN 0022-2836
PubMed: 17070541
DOI: 10.1016/J.JMB.2006.10.010
Page generated: Wed Oct 16 22:23:07 2024

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