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Magnesium in PDB 2y7z: Structure and Property Based Design of Factor Xa Inhibitors: Pyrrolidin-2-Ones with Aminoindane and Phenylpyrrolidine P4 Motifs

Enzymatic activity of Structure and Property Based Design of Factor Xa Inhibitors: Pyrrolidin-2-Ones with Aminoindane and Phenylpyrrolidine P4 Motifs

All present enzymatic activity of Structure and Property Based Design of Factor Xa Inhibitors: Pyrrolidin-2-Ones with Aminoindane and Phenylpyrrolidine P4 Motifs:
3.4.21.6;

Protein crystallography data

The structure of Structure and Property Based Design of Factor Xa Inhibitors: Pyrrolidin-2-Ones with Aminoindane and Phenylpyrrolidine P4 Motifs, PDB code: 2y7z was solved by R.J.Young, C.Adams, M.Blows, D.Brown, C.L.Burns-Kurtis, L.Chaudry, C.Chan, M.A.Convery, D.E.Davies, A.M.Exall, G.Foster, J.D.Harling, E.Hortense, W.R.Irving, S.Irvine, S.Jackson, S.Kleanthous, A.J.Pateman, A.N.Patikis, T.J.Roethka, S.Senger, G.J.Stelman, J.R.Toomey, R.I.West, C.Whittaker, P.Zhou, N.S.Watson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 1.84
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 56.810, 72.096, 78.526, 90.00, 90.00, 90.00
R / Rfree (%) 19.6 / 24.6

Other elements in 2y7z:

The structure of Structure and Property Based Design of Factor Xa Inhibitors: Pyrrolidin-2-Ones with Aminoindane and Phenylpyrrolidine P4 Motifs also contains other interesting chemical elements:

Calcium (Ca) 1 atom
Chlorine (Cl) 1 atom

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Structure and Property Based Design of Factor Xa Inhibitors: Pyrrolidin-2-Ones with Aminoindane and Phenylpyrrolidine P4 Motifs (pdb code 2y7z). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the Structure and Property Based Design of Factor Xa Inhibitors: Pyrrolidin-2-Ones with Aminoindane and Phenylpyrrolidine P4 Motifs, PDB code: 2y7z:

Magnesium binding site 1 out of 1 in 2y7z

Go back to Magnesium Binding Sites List in 2y7z
Magnesium binding site 1 out of 1 in the Structure and Property Based Design of Factor Xa Inhibitors: Pyrrolidin-2-Ones with Aminoindane and Phenylpyrrolidine P4 Motifs


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure and Property Based Design of Factor Xa Inhibitors: Pyrrolidin-2-Ones with Aminoindane and Phenylpyrrolidine P4 Motifs within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg1247

b:30.4
occ:1.00
 O A:LYS224 2.2 29.2 1.0
O A:ASP185A 2.2 31.8 1.0
O A:ARG222 2.2 31.8 1.0
O A:TYR185 2.2 29.6 1.0
O A:HOH2122 2.2 33.4 1.0
O A:HOH2144 3.0 28.3 1.0
C A:ASP185A 3.1 33.3 1.0
C A:TYR185 3.3 28.9 1.0
C A:LYS224 3.4 28.9 1.0
C A:ARG222 3.4 33.4 1.0
N A:LYS224 3.6 29.5 1.0
CA A:ASP185A 3.7 32.5 1.0
N A:ASP185A 4.0 31.4 1.0
N A:THR185B 4.0 34.8 1.0
CA A:LYS224 4.0 29.4 1.0
C A:ALA221 4.1 33.5 1.0
N A:GLY223A 4.1 30.2 1.0
N A:ARG222 4.2 33.5 1.0
O A:ALA221 4.2 35.0 1.0
N A:LYS223 4.2 33.1 1.0
CA A:LYS223 4.3 32.9 1.0
CA A:ARG222 4.4 34.0 1.0
C A:LYS223 4.4 31.1 1.0
N A:TYR225 4.5 28.1 1.0
CA A:THR185B 4.5 35.8 1.0
O A:HOH2126 4.5 24.5 1.0
CA A:TYR185 4.6 27.9 1.0
CA A:ALA221 4.6 33.0 1.0
CB A:LYS224 4.6 28.5 1.0
C A:GLY223A 4.7 30.4 1.0
O A:LYS186 4.7 36.5 1.0
CA A:TYR225 4.8 26.4 1.0
C A:THR185B 4.9 36.5 1.0
N A:TYR185 4.9 26.3 1.0
CA A:GLY223A 4.9 30.4 1.0
CB A:TYR185 5.0 28.1 1.0

Reference:

R.J.Young, C.Adams, M.Blows, D.Brown, C.L.Burns-Kurtis, C.Chan, L.Chaudry, M.A.Convery, D.E.Davies, A.M.Exall, G.Foster, J.D.Harling, E.Hortense, S.Irvine, W.R.Irving, S.Jackson, S.Kleanthous, A.J.Pateman, A.N.Patikis, T.J.Roethka, S.Senger, G.J.Stelman, J.R.Toomey, R.I.West, C.Whittaker, P.Zhou, N.S.Watson. Structure and Property Based Design of Factor Xa Inhibitors: Pyrrolidin-2-Ones with Aminoindane and Phenylpyrrolidine P4 Motifs. Bioorg.Med.Chem.Lett. V. 21 1582 2011.
ISSN: ISSN 0960-894X
PubMed: 21349710
DOI: 10.1016/J.BMCL.2011.01.131
Page generated: Sun Aug 10 16:39:39 2025

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