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Calcium in PDB 6y8h: Novel P38-Alpha Crystal Lattice with Highly Exposed P38/TAB1 Non- Canonical Ppi Surface.

Enzymatic activity of Novel P38-Alpha Crystal Lattice with Highly Exposed P38/TAB1 Non- Canonical Ppi Surface.

All present enzymatic activity of Novel P38-Alpha Crystal Lattice with Highly Exposed P38/TAB1 Non- Canonical Ppi Surface.:
2.7.11.24;

Protein crystallography data

The structure of Novel P38-Alpha Crystal Lattice with Highly Exposed P38/TAB1 Non- Canonical Ppi Surface., PDB code: 6y8h was solved by G.F.De Nicola, C.E.Nichols, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 51.16 / 1.37
Space group I 2 2 2
Cell size a, b, c (Å), α, β, γ (°) 80.864, 102.325, 103.821, 90.00, 90.00, 90.00
R / Rfree (%) 21.9 / 24

Other elements in 6y8h:

The structure of Novel P38-Alpha Crystal Lattice with Highly Exposed P38/TAB1 Non- Canonical Ppi Surface. also contains other interesting chemical elements:

Fluorine (F) 1 atom
Chlorine (Cl) 2 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the Novel P38-Alpha Crystal Lattice with Highly Exposed P38/TAB1 Non- Canonical Ppi Surface. (pdb code 6y8h). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 5 binding sites of Calcium where determined in the Novel P38-Alpha Crystal Lattice with Highly Exposed P38/TAB1 Non- Canonical Ppi Surface., PDB code: 6y8h:
Jump to Calcium binding site number: 1; 2; 3; 4; 5;

Calcium binding site 1 out of 5 in 6y8h

Go back to Calcium Binding Sites List in 6y8h
Calcium binding site 1 out of 5 in the Novel P38-Alpha Crystal Lattice with Highly Exposed P38/TAB1 Non- Canonical Ppi Surface.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Novel P38-Alpha Crystal Lattice with Highly Exposed P38/TAB1 Non- Canonical Ppi Surface. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca402

b:16.4
occ:1.00
 O A:GLU356 2.4 20.1 1.0
OD1 A:ASP354 2.4 16.9 1.0
OD2 A:ASP354 2.6 16.9 1.0
CG A:ASP354 2.8 17.6 1.0
C A:GLU356 3.5 20.0 1.0
N A:GLU357 4.3 21.7 1.0
CB A:ASP354 4.4 16.2 1.0
N A:GLU356 4.4 17.4 1.0
CA A:GLU356 4.4 19.8 1.0
CA A:GLU357 4.4 23.5 1.0
O A:HOH719 4.6 24.5 1.0
CB A:GLU356 4.6 21.2 1.0

Calcium binding site 2 out of 5 in 6y8h

Go back to Calcium Binding Sites List in 6y8h
Calcium binding site 2 out of 5 in the Novel P38-Alpha Crystal Lattice with Highly Exposed P38/TAB1 Non- Canonical Ppi Surface.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Novel P38-Alpha Crystal Lattice with Highly Exposed P38/TAB1 Non- Canonical Ppi Surface. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca403

b:18.4
occ:1.00
 O A:HOH594 2.4 17.8 1.0
OD2 A:ASP313 2.4 21.5 1.0
O A:HOH643 2.4 24.3 1.0
OE2 A:GLU359 2.5 24.4 1.0
O A:HOH590 2.5 19.3 1.0
CG A:ASP313 3.4 20.7 1.0
CD A:GLU359 3.5 30.1 1.0
CB A:ASP313 3.8 18.6 1.0
OE1 A:GLU359 3.9 33.4 1.0
O A:HOH718 4.4 34.0 1.0
OD2 A:ASP316 4.5 19.9 1.0
OD1 A:ASP313 4.5 21.2 1.0
O A:HOH532 4.6 20.1 1.0
O A:HOH706 4.8 31.1 1.0
CB A:ASP316 4.8 18.6 1.0
CG A:GLU359 4.9 28.9 1.0

Calcium binding site 3 out of 5 in 6y8h

Go back to Calcium Binding Sites List in 6y8h
Calcium binding site 3 out of 5 in the Novel P38-Alpha Crystal Lattice with Highly Exposed P38/TAB1 Non- Canonical Ppi Surface.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Novel P38-Alpha Crystal Lattice with Highly Exposed P38/TAB1 Non- Canonical Ppi Surface. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca404

b:38.0
occ:1.00
 O A:HOH617 2.4 35.2 1.0
OD1 A:ASP315 2.6 38.5 1.0
CG A:ASP315 3.6 33.4 1.0
O A:HOH718 3.8 34.0 1.0
CB A:ASP315 3.9 28.8 1.0
OD1 A:ASP313 4.5 21.2 1.0
CB A:GLU359 4.5 30.7 1.0
OD2 A:ASP315 4.8 37.9 1.0
OD2 A:ASP313 4.8 21.5 1.0

Calcium binding site 4 out of 5 in 6y8h

Go back to Calcium Binding Sites List in 6y8h
Calcium binding site 4 out of 5 in the Novel P38-Alpha Crystal Lattice with Highly Exposed P38/TAB1 Non- Canonical Ppi Surface.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Novel P38-Alpha Crystal Lattice with Highly Exposed P38/TAB1 Non- Canonical Ppi Surface. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca405

b:44.1
occ:0.50
 O A:HOH715 2.5 40.0 1.0
O A:HOH660 2.8 37.5 0.5
O A:HOH601 4.3 36.3 1.0
OE2 A:GLU163 4.5 28.4 1.0
OE2 A:GLU356 4.8 29.8 1.0
OE1 A:GLU163 4.9 26.0 1.0
O A:HOH719 5.0 24.5 1.0

Calcium binding site 5 out of 5 in 6y8h

Go back to Calcium Binding Sites List in 6y8h
Calcium binding site 5 out of 5 in the Novel P38-Alpha Crystal Lattice with Highly Exposed P38/TAB1 Non- Canonical Ppi Surface.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Novel P38-Alpha Crystal Lattice with Highly Exposed P38/TAB1 Non- Canonical Ppi Surface. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca406

b:59.5
occ:1.00
 OE2 A:GLU328 3.5 25.6 1.0
CD A:GLU328 3.9 24.5 1.0
O A:HOH563 4.0 40.7 1.0
NE A:ARG70 4.1 19.4 1.0
OE1 A:GLU328 4.2 23.6 1.0
O A:GLY170 4.5 27.6 1.0
O A:HOH539 4.6 27.3 1.0
CD A:ARG70 4.6 20.5 1.0
CG A:GLU328 4.6 22.0 1.0
O A:LEU171 4.7 49.4 1.0
CZ A:ARG70 4.7 22.2 1.0
O A:HOH671 4.8 29.1 1.0
NH1 A:ARG149 4.8 33.9 1.0
NH2 A:ARG70 4.9 20.6 1.0

Reference:

G.F.De Nicola, C.E.Nichols. Novel P38-Alpha Crystal Lattice with Highly Exposed P38/TAB1 Non-Canonical Ppi Surface. To Be Published.
Page generated: Wed Jul 9 20:18:09 2025

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