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Calcium in PDB 8b2q: Matrix-Metallopeptidase Inhibitor Potempin A (Pota) From Tannerella Forsythia in Complex with T. Forsythia Karilysin.

Protein crystallography data

The structure of Matrix-Metallopeptidase Inhibitor Potempin A (Pota) From Tannerella Forsythia in Complex with T. Forsythia Karilysin., PDB code: 8b2q was solved by J.Potempa, M.Ksiazek, T.Goulas, A.Cuppari, A.Rodriguez-Banqueri, J.L.Arolas, M.Lopez-Pelegrin, I.Garcia-Ferrer, T.Guevara, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 36.07 / 1.35
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 38.24, 62.94, 108.68, 90, 90, 90
R / Rfree (%) 15.4 / 17.1

Other elements in 8b2q:

The structure of Matrix-Metallopeptidase Inhibitor Potempin A (Pota) From Tannerella Forsythia in Complex with T. Forsythia Karilysin. also contains other interesting chemical elements:

Zinc (Zn) 2 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the Matrix-Metallopeptidase Inhibitor Potempin A (Pota) From Tannerella Forsythia in Complex with T. Forsythia Karilysin. (pdb code 8b2q). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total only one binding site of Calcium was determined in the Matrix-Metallopeptidase Inhibitor Potempin A (Pota) From Tannerella Forsythia in Complex with T. Forsythia Karilysin., PDB code: 8b2q:

Calcium binding site 1 out of 1 in 8b2q

Go back to Calcium Binding Sites List in 8b2q
Calcium binding site 1 out of 1 in the Matrix-Metallopeptidase Inhibitor Potempin A (Pota) From Tannerella Forsythia in Complex with T. Forsythia Karilysin.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Matrix-Metallopeptidase Inhibitor Potempin A (Pota) From Tannerella Forsythia in Complex with T. Forsythia Karilysin. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca303

b:14.6
occ:0.98
OD2 A:ASP135 2.3 14.9 1.0
OE1 A:GLU138 2.3 19.9 1.0
OD1 A:ASP109 2.3 16.5 1.0
O A:THR112 2.3 17.1 0.6
O A:GLY110 2.4 19.8 1.0
O A:ILE114 2.4 12.9 1.0
O A:THR112 2.4 24.6 0.4
H A:THR112 2.8 21.9 0.6
CG A:ASP135 3.4 15.9 1.0
CG A:ASP109 3.5 18.2 1.0
CD A:GLU138 3.5 20.5 1.0
H A:ASP109 3.6 16.7 1.0
C A:THR112 3.6 22.7 0.6
C A:ILE114 3.6 14.7 1.0
C A:THR112 3.6 26.3 0.4
C A:GLY110 3.6 22.2 1.0
HG2 A:GLU138 3.7 19.8 1.0
HD12 A:ILE114 3.7 21.9 1.0
N A:THR112 3.8 22.4 0.6
H A:ILE114 3.8 15.1 1.0
N A:ILE114 3.9 15.1 1.0
HB3 A:ASP135 4.0 13.9 1.0
HA A:ASN111 4.1 19.3 0.6
N A:GLY110 4.1 18.2 1.0
HA A:LEU115 4.1 11.2 1.0
OD2 A:ASP109 4.1 19.1 1.0
CG A:GLU138 4.2 18.8 1.0
C A:GLY113 4.2 20.7 1.0
N A:THR112 4.2 24.8 0.4
CB A:ASP135 4.2 13.2 1.0
C A:ASP109 4.2 21.2 1.0
HB2 A:ASP135 4.2 14.3 1.0
C A:ASN111 4.2 27.4 0.4
H A:GLY110 4.3 20.1 1.0
OD1 A:ASP135 4.3 14.7 1.0
HA A:ASN111 4.3 21.2 0.4
CA A:ILE114 4.4 14.1 1.0
HD23 A:LEU115 4.4 15.2 1.0
CA A:THR112 4.4 21.8 0.6
HB3 A:PHE108 4.4 14.8 1.0
H A:THR112 4.4 24.9 0.4
HA3 A:GLY113 4.4 18.8 1.0
HG3 A:GLU138 4.4 19.1 1.0
CA A:GLY110 4.4 19.6 1.0
N A:ASP109 4.4 16.7 1.0
O A:HOH515 4.5 31.9 1.0
O A:ASN111 4.5 28.9 0.4
N A:GLY113 4.5 21.6 1.0
CA A:THR112 4.5 24.6 0.4
OE2 A:GLU138 4.5 21.5 1.0
N A:ASN111 4.5 21.5 0.4
N A:ASN111 4.6 20.3 0.6
CA A:GLY113 4.6 20.3 1.0
CB A:ASP109 4.6 18.1 1.0
O A:GLY113 4.6 20.0 1.0
N A:LEU115 4.6 12.0 1.0
CA A:ASP109 4.6 17.1 1.0
O A:ASP109 4.6 21.5 1.0
CA A:ASN111 4.6 22.0 0.4
CA A:ASN111 4.7 20.1 0.6
CD1 A:ILE114 4.7 22.5 1.0
C A:ASN111 4.7 25.1 0.6
HB2 A:ASP137 4.8 18.2 1.0
CA A:LEU115 4.8 12.4 1.0
HG22 A:THR112 4.9 26.3 0.6
HG23 A:THR112 4.9 26.0 0.6
HD13 A:ILE114 4.9 21.5 1.0

Reference:

M.Ksiazek, T.Goulas, D.Mizgalska, A.Rodriguez-Banqueri, U.Eckhard, F.Veillard, I.Waligorska, M.Benedyk-Machaczka, A.M.Sochaj-Gregorczyk, M.Madej, I.B.Thogersen, J.J.Enghild, A.Cuppari, J.L.Arolas, I.De Diego, M.Lopez-Pelegrin, I.Garcia-Ferrer, T.Guevara, V.Dive, M.L.Zani, T.Moreau, J.Potempa, F.X.Gomis-Ruth. A Unique Network of Attack, Defence and Competence on the Outer Membrane of the Periodontitis Pathogen Tannerella Forsythia Chem Sci 2023.
ISSN: ESSN 2041-6539
Page generated: Thu Jul 10 03:19:17 2025

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