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Calcium in PDB 6wyh: Crystal Structure of Human H-Chain Ferritin Variant 157C Delta C-Star Modified with A Raft Agent Soaked in An Acrylate Solution

Enzymatic activity of Crystal Structure of Human H-Chain Ferritin Variant 157C Delta C-Star Modified with A Raft Agent Soaked in An Acrylate Solution

All present enzymatic activity of Crystal Structure of Human H-Chain Ferritin Variant 157C Delta C-Star Modified with A Raft Agent Soaked in An Acrylate Solution:
1.16.3.1;

Protein crystallography data

The structure of Crystal Structure of Human H-Chain Ferritin Variant 157C Delta C-Star Modified with A Raft Agent Soaked in An Acrylate Solution, PDB code: 6wyh was solved by J.B.Bailey, L.Zhang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 97.27 / 2.22
Space group H 3 2
Cell size a, b, c (Å), α, β, γ (°) 128.880, 128.880, 291.810, 90.00, 90.00, 120.00
R / Rfree (%) 19.3 / 24.5

Other elements in 6wyh:

The structure of Crystal Structure of Human H-Chain Ferritin Variant 157C Delta C-Star Modified with A Raft Agent Soaked in An Acrylate Solution also contains other interesting chemical elements:

Iron (Fe) 10 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the Crystal Structure of Human H-Chain Ferritin Variant 157C Delta C-Star Modified with A Raft Agent Soaked in An Acrylate Solution (pdb code 6wyh). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 7 binding sites of Calcium where determined in the Crystal Structure of Human H-Chain Ferritin Variant 157C Delta C-Star Modified with A Raft Agent Soaked in An Acrylate Solution, PDB code: 6wyh:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7;

Calcium binding site 1 out of 7 in 6wyh

Go back to Calcium Binding Sites List in 6wyh
Calcium binding site 1 out of 7 in the Crystal Structure of Human H-Chain Ferritin Variant 157C Delta C-Star Modified with A Raft Agent Soaked in An Acrylate Solution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure of Human H-Chain Ferritin Variant 157C Delta C-Star Modified with A Raft Agent Soaked in An Acrylate Solution within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca203

b:38.3
occ:1.00
 OD2 B:ASP84 2.3 31.4 1.0
CG B:ASP84 3.1 29.7 1.0
OD1 B:ASP84 3.1 29.3 1.0
O B:HOH372 4.3 30.9 1.0
O B:HOH379 4.3 34.8 1.0
CB B:ASP84 4.5 29.4 1.0

Calcium binding site 2 out of 7 in 6wyh

Go back to Calcium Binding Sites List in 6wyh
Calcium binding site 2 out of 7 in the Crystal Structure of Human H-Chain Ferritin Variant 157C Delta C-Star Modified with A Raft Agent Soaked in An Acrylate Solution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Crystal Structure of Human H-Chain Ferritin Variant 157C Delta C-Star Modified with A Raft Agent Soaked in An Acrylate Solution within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca204

b:70.1
occ:1.00
 O B:HOH460 2.4 50.5 1.0
O B:HOH323 2.6 21.4 1.0
O B:HOH453 4.0 40.4 1.0
CA B:CA205 4.2 69.8 1.0
O B:ASP89 4.3 27.2 1.0
OD1 B:ASP89 4.5 51.5 1.0
CA B:ASP89 4.8 30.2 1.0
C B:ASP89 4.9 28.2 1.0

Calcium binding site 3 out of 7 in 6wyh

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Calcium binding site 3 out of 7 in the Crystal Structure of Human H-Chain Ferritin Variant 157C Delta C-Star Modified with A Raft Agent Soaked in An Acrylate Solution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Crystal Structure of Human H-Chain Ferritin Variant 157C Delta C-Star Modified with A Raft Agent Soaked in An Acrylate Solution within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca205

b:69.8
occ:1.00
 O B:HOH323 2.4 21.4 1.0
O B:HOH486 3.1 30.5 1.0
O B:ASP89 3.9 27.2 1.0
OE2 B:GLU90 4.0 34.4 1.0
O B:HOH453 4.1 40.4 1.0
CA B:CA204 4.2 70.1 1.0
OE1 B:GLU90 4.2 34.3 1.0
CD B:GLU90 4.4 31.6 1.0

Calcium binding site 4 out of 7 in 6wyh

Go back to Calcium Binding Sites List in 6wyh
Calcium binding site 4 out of 7 in the Crystal Structure of Human H-Chain Ferritin Variant 157C Delta C-Star Modified with A Raft Agent Soaked in An Acrylate Solution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Crystal Structure of Human H-Chain Ferritin Variant 157C Delta C-Star Modified with A Raft Agent Soaked in An Acrylate Solution within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca203

b:63.4
occ:1.00
 OE2 C:GLU134 2.8 38.6 1.0
OD1 C:ASP131 2.8 38.6 1.0
CA C:CA204 3.2 82.4 1.0
CD C:GLU134 4.0 37.8 1.0
CG C:ASP131 4.0 37.4 1.0
O C:HOH301 4.3 38.4 1.0
OE1 C:GLU134 4.6 39.2 1.0
CB C:ASP131 4.7 31.4 1.0
CB C:GLU134 4.9 33.0 1.0
OD2 C:ASP131 5.0 39.8 1.0
CA C:ASP131 5.0 29.2 1.0

Calcium binding site 5 out of 7 in 6wyh

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Calcium binding site 5 out of 7 in the Crystal Structure of Human H-Chain Ferritin Variant 157C Delta C-Star Modified with A Raft Agent Soaked in An Acrylate Solution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Crystal Structure of Human H-Chain Ferritin Variant 157C Delta C-Star Modified with A Raft Agent Soaked in An Acrylate Solution within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca204

b:82.4
occ:1.00
 O C:HOH301 2.4 38.4 1.0
CA C:CA203 3.2 63.4 1.0
OE2 C:GLU134 3.6 38.6 1.0
OE1 C:GLU134 3.9 39.2 1.0
CD C:GLU134 4.2 37.8 1.0
O C:HOH335 4.5 39.2 1.0
OD1 C:ASP131 5.0 38.6 1.0

Calcium binding site 6 out of 7 in 6wyh

Go back to Calcium Binding Sites List in 6wyh
Calcium binding site 6 out of 7 in the Crystal Structure of Human H-Chain Ferritin Variant 157C Delta C-Star Modified with A Raft Agent Soaked in An Acrylate Solution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Crystal Structure of Human H-Chain Ferritin Variant 157C Delta C-Star Modified with A Raft Agent Soaked in An Acrylate Solution within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ca203

b:80.6
occ:0.33
 CA D:CA204 2.6 88.6 0.3
O D:HOH322 2.6 47.6 1.0
OD1 D:ASP131 2.6 52.7 1.0
OE2 D:GLU134 3.2 46.8 1.0
CG D:ASP131 3.9 48.4 1.0
O D:HOH365 3.9 39.4 1.0
CD D:GLU134 4.4 46.2 1.0
OD2 D:ASP131 4.7 52.2 1.0
OG1 D:THR135 4.7 44.0 1.0
CB D:ASP131 4.8 40.3 1.0
CB D:GLU134 4.9 39.7 1.0
O D:HOH311 4.9 31.6 1.0

Calcium binding site 7 out of 7 in 6wyh

Go back to Calcium Binding Sites List in 6wyh
Calcium binding site 7 out of 7 in the Crystal Structure of Human H-Chain Ferritin Variant 157C Delta C-Star Modified with A Raft Agent Soaked in An Acrylate Solution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of Crystal Structure of Human H-Chain Ferritin Variant 157C Delta C-Star Modified with A Raft Agent Soaked in An Acrylate Solution within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ca204

b:88.6
occ:0.33
 OE2 D:GLU134 2.3 46.8 1.0
O D:HOH311 2.5 31.6 1.0
CA D:CA203 2.6 80.6 0.3
CD D:GLU134 3.2 46.2 1.0
OE1 D:GLU134 3.4 49.5 1.0
OD1 D:ASP131 3.8 52.7 1.0
O D:HOH337 4.5 34.3 1.0
CG D:GLU134 4.6 42.7 1.0
CG D:ASP131 4.7 48.4 1.0
CB D:ASP131 4.8 40.3 1.0
CA D:ASP131 4.9 37.3 1.0
CB D:GLU134 4.9 39.7 1.0

Reference:

K.Han, J.B.Bailey, L.Zhang, F.A.Tezcan. Anisotropic Dynamics and Mechanics of Macromolecular Crystals Containing Lattice-Patterned Polymer Networks. J.Am.Chem.Soc. V. 142 19402 2020.
ISSN: ESSN 1520-5126
PubMed: 33124805
DOI: 10.1021/JACS.0C10065
Page generated: Tue Jul 16 17:37:27 2024

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