Calcium in PDB 7p74: The Pdz Domain of SYNJ2BP Complexed with the Phosphorylated Pdz- Binding Motif of RSK1

All present enzymatic activity of The Pdz Domain of SYNJ2BP Complexed with the Phosphorylated Pdz- Binding Motif of RSK1:
2.7.11.1;

The structure of The Pdz Domain of SYNJ2BP Complexed with the Phosphorylated Pdz- Binding Motif of RSK1, PDB code: 7p74 was solved by G.Gogl, A.Cousido-Siah, G.Trave, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	46.71 / 1.90
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	59.62, 75.15, 108.46, 90, 90, 90
R / Rfree (%)	18.1 / 21.1

The binding sites of Calcium atom in the The Pdz Domain of SYNJ2BP Complexed with the Phosphorylated Pdz- Binding Motif of RSK1 (pdb code 7p74). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the The Pdz Domain of SYNJ2BP Complexed with the Phosphorylated Pdz- Binding Motif of RSK1, PDB code: 7p74:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in the The Pdz Domain of SYNJ2BP Complexed with the Phosphorylated Pdz- Binding Motif of RSK1


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of The Pdz Domain of SYNJ2BP Complexed with the Phosphorylated Pdz- Binding Motif of RSK1 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca501 b:43.9 occ:1.00 O A:VAL134 2.4 40.6 1.0 O A:HOH733 2.4 62.5 1.0 O A:GLY133 2.4 50.3 1.0 O A:HOH780 2.4 43.5 1.0 OE1 A:GLU136 2.4 52.0 1.0 O A:HOH794 2.6 53.2 1.0 OE2 A:GLU136 2.7 49.2 1.0 CD A:GLU136 2.9 48.9 1.0 C A:GLY133 3.4 49.5 1.0 C A:VAL134 3.5 43.0 1.0 O A:HOH792 4.1 52.1 1.0 N A:VAL134 4.1 41.3 1.0 CA A:VAL134 4.1 41.1 1.0 CB A:VAL134 4.2 38.3 1.0 CG A:GLU136 4.4 40.0 1.0 CA A:GLY133 4.4 58.7 1.0 O A:HOH727 4.5 53.9 1.0 N A:GLU136 4.6 31.1 1.0 N A:ASP135 4.6 32.3 1.0 O A:HOH767 4.8 46.9 1.0 CG1 A:VAL134 4.9 38.6 1.0 CA A:ASP135 4.9 33.0 1.0

Calcium binding site 2 out of 4 in the The Pdz Domain of SYNJ2BP Complexed with the Phosphorylated Pdz- Binding Motif of RSK1


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of The Pdz Domain of SYNJ2BP Complexed with the Phosphorylated Pdz- Binding Motif of RSK1 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca502 b:32.4 occ:1.00 O A:LYS171 2.3 37.7 1.0 O A:LEU174 2.3 31.7 1.0 OE1 A:GLU179 2.4 43.8 1.0 O A:HOH615 2.5 39.6 1.0 CD A:GLU179 3.4 45.5 1.0 C A:LYS171 3.5 40.7 1.0 C A:LEU174 3.5 33.6 1.0 OE2 A:GLU179 3.8 44.3 1.0 CA A:SER175 4.0 32.3 1.0 N A:SER175 4.2 32.4 1.0 CB A:SER175 4.2 34.0 1.0 CA A:LYS171 4.3 39.2 1.0 N A:SER172 4.5 36.8 0.4 N A:SER172 4.5 36.4 0.6 O A:HOH818 4.5 48.0 1.0 CA A:SER172 4.6 38.6 0.4 N A:LEU174 4.6 30.1 1.0 CA A:SER172 4.6 38.7 0.6 CA A:LEU174 4.7 29.8 1.0 CG A:GLU179 4.7 33.7 1.0 C A:SER172 4.8 38.2 0.6 C A:SER172 4.8 38.3 0.4 O A:SER172 4.8 43.3 0.6 O A:SER172 4.9 42.7 0.4 CB A:LYS171 4.9 39.5 1.0 O A:LEU170 5.0 39.1 1.0

Calcium binding site 3 out of 4 in the The Pdz Domain of SYNJ2BP Complexed with the Phosphorylated Pdz- Binding Motif of RSK1


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of The Pdz Domain of SYNJ2BP Complexed with the Phosphorylated Pdz- Binding Motif of RSK1 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca503 b:46.6 occ:1.00 O A:GLY285 2.3 44.0 1.0 O A:ARG288 2.3 49.4 1.0 O A:GLY290 2.4 44.0 1.0 O A:HOH772 2.4 46.1 1.0 O A:HOH730 2.4 61.3 1.0 OE1 A:GLU330 2.5 51.0 1.0 OE2 A:GLU330 2.7 52.3 1.0 CD A:GLU330 2.9 46.4 1.0 C A:GLY285 3.2 42.6 1.0 C A:GLY290 3.4 53.0 1.0 C A:ARG288 3.5 49.5 1.0 N A:GLY290 3.7 51.0 1.0 N A:VAL286 4.0 40.9 1.0 CA A:GLY285 4.1 41.8 1.0 CA A:VAL286 4.1 43.9 1.0 CA A:GLY290 4.1 58.2 1.0 C A:LYS289 4.1 51.7 1.0 OG1 A:THR291 4.2 56.6 1.0 CG A:ARG288 4.2 57.2 1.0 N A:ARG288 4.3 48.9 1.0 CA A:LYS289 4.3 52.8 1.0 C A:VAL286 4.3 43.3 1.0 N A:LYS289 4.3 51.3 1.0 O A:VAL286 4.4 48.0 1.0 CA A:ARG288 4.4 53.2 1.0 CG A:GLU330 4.4 41.2 1.0 O A:HOH703 4.4 56.6 1.0 N A:THR291 4.5 52.5 1.0 O A:HOH790 4.8 67.1 1.0 CA A:THR291 4.8 52.2 1.0 O A:LYS289 4.8 64.9 1.0 CB A:ARG288 4.9 53.3 1.0 N A:LYS287 5.0 39.7 1.0

Calcium binding site 4 out of 4 in the The Pdz Domain of SYNJ2BP Complexed with the Phosphorylated Pdz- Binding Motif of RSK1


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of The Pdz Domain of SYNJ2BP Complexed with the Phosphorylated Pdz- Binding Motif of RSK1 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca504 b:28.7 occ:1.00 O A:GLY365 2.4 30.4 1.0 O A:MET361 2.4 30.1 1.0 O A:GLY363 2.4 31.7 1.0 OD2 A:ASP405 2.5 26.0 1.0 OD1 A:ASP405 2.5 30.2 1.0 CG A:ASP405 2.8 34.1 1.0 C A:MET361 3.4 26.2 1.0 C A:GLY365 3.5 31.8 1.0 C A:GLY363 3.6 34.5 1.0 N A:GLY365 3.9 31.3 1.0 CA A:MET361 4.0 26.2 1.0 N A:GLY363 4.1 33.8 1.0 CA A:GLY365 4.2 33.3 1.0 C A:LYS364 4.3 35.0 1.0 C A:LYS362 4.3 32.6 1.0 CB A:ASP405 4.3 27.9 1.0 OG1 A:THR366 4.4 34.7 1.0 CA A:GLY363 4.4 31.9 1.0 N A:LYS362 4.5 29.7 1.0 O A:HOH674 4.5 38.9 1.0 O A:LYS362 4.5 33.0 1.0 N A:THR366 4.6 29.7 1.0 N A:LYS364 4.6 32.7 1.0 CB A:MET361 4.6 23.7 1.0 O A:LYS364 4.7 31.5 1.0 O A:HOH635 4.7 24.6 1.0 CA A:LYS364 4.7 30.6 1.0 CA A:THR366 4.8 30.0 1.0 CA A:LYS362 4.9 29.2 1.0 O A:HOH759 4.9 40.2 1.0

G.Gogl, A.Cousido-Siah, G.Trave. The Pdz Domain of SYNJ2BP Complexed with the Phosphorylated Pdz-Binding Motif of RSK1 To Be Published.