Magnesium in PDB 5hqm: Structure Function Studies of R. Palustris Rubisco (R. Palustris/R. Rubrum Chimera)

All present enzymatic activity of Structure Function Studies of R. Palustris Rubisco (R. Palustris/R. Rubrum Chimera):
4.1.1.39;

The structure of Structure Function Studies of R. Palustris Rubisco (R. Palustris/R. Rubrum Chimera), PDB code: 5hqm was solved by M.A.Arbing, A.Shin, D.Cascio, S.Satagopan, F.R.Tabita, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	82.56 / 1.95
Space group	H 3
Cell size a, b, c (Å), α, β, γ (°)	165.120, 165.120, 95.230, 90.00, 90.00, 120.00
R / Rfree (%)	16.7 / 19.2

The structure of Structure Function Studies of R. Palustris Rubisco (R. Palustris/R. Rubrum Chimera) also contains other interesting chemical elements:

Potassium

(K)

2 atoms

The binding sites of Magnesium atom in the Structure Function Studies of R. Palustris Rubisco (R. Palustris/R. Rubrum Chimera) (pdb code 5hqm). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Structure Function Studies of R. Palustris Rubisco (R. Palustris/R. Rubrum Chimera), PDB code: 5hqm:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Structure Function Studies of R. Palustris Rubisco (R. Palustris/R. Rubrum Chimera)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure Function Studies of R. Palustris Rubisco (R. Palustris/R. Rubrum Chimera) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg502 b:36.9 occ:1.00 HO3 A:CAP501 1.4 37.4 1.0 OE1 A:GLU195 2.0 34.7 1.0 OQ2 A:KCX192 2.0 36.9 1.0 OD1 A:ASP194 2.0 35.2 1.0 O6 A:CAP501 2.1 36.8 1.0 O3 A:CAP501 2.2 37.6 1.0 O2 A:CAP501 2.2 40.2 1.0 HO2 A:CAP501 2.7 40.3 1.0 C2 A:CAP501 2.7 39.6 1.0 C A:CAP501 2.7 37.1 1.0 H A:GLU195 2.8 35.8 1.0 HD21 B:ASN112 2.8 45.9 1.0 C3 A:CAP501 2.9 40.2 1.0 HZ1 A:LYS167 3.1 37.9 1.0 CX A:KCX192 3.1 35.5 1.0 CD A:GLU195 3.1 42.8 1.0 HE2 A:HIS288 3.2 34.3 1.0 CG A:ASP194 3.2 39.5 1.0 HZ3 A:LYS169 3.2 48.7 1.0 H3 A:CAP501 3.4 39.6 1.0 OQ1 A:KCX192 3.4 38.3 1.0 HG21 A:ILE165 3.4 38.3 1.0 HA A:ASP194 3.5 33.6 1.0 ND2 B:ASN112 3.5 44.9 1.0 HZ1 A:LYS169 3.6 49.5 1.0 HD22 B:ASN112 3.6 44.8 1.0 HZ2 A:LYS169 3.6 48.6 1.0 NZ A:LYS169 3.7 49.1 1.0 OE2 A:GLU195 3.7 37.9 1.0 N A:GLU195 3.8 34.6 1.0 NE2 A:HIS288 3.9 34.5 1.0 OD2 A:ASP194 3.9 46.9 1.0 NZ A:LYS167 3.9 38.8 1.0 HB3 A:GLU195 3.9 33.9 1.0 O7 A:CAP501 4.0 38.5 1.0 HZ3 A:LYS167 4.0 40.3 1.0 HZ2 A:LYS167 4.2 39.8 1.0 C1 A:CAP501 4.2 40.7 1.0 HG12 A:ILE165 4.2 35.1 1.0 CA A:ASP194 4.2 33.4 1.0 C4 A:CAP501 4.3 43.6 1.0 HE1 A:HIS288 4.3 36.2 1.0 CB A:ASP194 4.3 34.6 1.0 CG A:GLU195 4.3 37.4 1.0 NZ A:KCX192 4.3 34.3 1.0 CE1 A:HIS288 4.4 34.3 1.0 H4 A:CAP501 4.5 43.5 1.0 CG2 A:ILE165 4.5 38.7 1.0 CB A:GLU195 4.5 33.4 1.0 HD3 A:PRO196 4.5 37.6 1.0 C A:ASP194 4.5 37.6 1.0 H51 A:CAP501 4.5 41.7 1.0 H11 A:CAP501 4.6 39.6 1.0 O1 A:CAP501 4.6 39.3 1.0 HG23 A:ILE165 4.7 37.4 1.0 CA A:GLU195 4.8 33.1 1.0 CG B:ASN112 4.8 45.4 1.0 H12 A:CAP501 4.8 41.4 1.0 C5 A:CAP501 4.8 41.2 1.0 H52 A:CAP501 4.8 39.3 1.0 HD13 A:ILE165 4.8 40.5 1.0 CD2 A:HIS288 4.8 34.8 1.0 HG3 A:LYS169 4.9 34.5 1.0 O B:HOH626 4.9 38.8 1.0 HG3 A:GLU195 4.9 37.9 1.0 O B:HOH682 4.9 41.8 1.0 HB3 A:ASP194 4.9 33.6 1.0 HG22 A:ILE165 5.0 39.5 1.0 HE2 A:LYS167 5.0 40.8 1.0

Magnesium binding site 2 out of 2 in the Structure Function Studies of R. Palustris Rubisco (R. Palustris/R. Rubrum Chimera)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure Function Studies of R. Palustris Rubisco (R. Palustris/R. Rubrum Chimera) within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg502 b:49.2 occ:1.00 HO3 B:CAP501 1.4 51.7 1.0 OE1 B:GLU195 1.9 58.9 1.0 OD1 B:ASP194 2.0 48.0 1.0 OQ1 B:KCX192 2.0 51.3 1.0 O7 B:CAP501 2.2 58.2 1.0 O3 B:CAP501 2.2 52.4 1.0 O2 B:CAP501 2.3 57.1 1.0 HD21 A:ASN112 2.7 56.0 1.0 H B:GLU195 2.7 47.8 1.0 HO2 B:CAP501 2.8 56.5 1.0 C2 B:CAP501 2.9 56.9 1.0 C B:CAP501 2.9 59.8 1.0 CX B:KCX192 3.0 49.4 1.0 C3 B:CAP501 3.1 56.2 1.0 CD B:GLU195 3.1 56.8 1.0 HZ1 B:LYS167 3.1 57.4 1.0 CG B:ASP194 3.2 51.0 1.0 HE2 B:HIS288 3.2 43.2 1.0 OQ2 B:KCX192 3.2 50.3 1.0 HZ3 B:LYS169 3.3 56.2 1.0 HG21 B:ILE165 3.4 50.0 1.0 HA B:ASP194 3.4 44.6 1.0 H3 B:CAP501 3.5 55.9 1.0 ND2 A:ASN112 3.5 56.9 1.0 HD22 A:ASN112 3.6 58.0 1.0 HZ1 B:LYS169 3.6 57.6 1.0 HZ2 B:LYS169 3.7 55.7 1.0 N B:GLU195 3.7 47.1 1.0 OE2 B:GLU195 3.7 58.0 1.0 NZ B:LYS169 3.7 56.9 1.0 NE2 B:HIS288 3.8 42.2 1.0 OD2 B:ASP194 3.8 53.3 1.0 HB3 B:GLU195 3.8 50.2 1.0 NZ B:LYS167 4.0 58.4 1.0 HZ3 B:LYS167 4.1 58.0 1.0 O6 B:CAP501 4.1 62.2 1.0 CA B:ASP194 4.2 44.4 1.0 HE1 B:HIS288 4.2 41.0 1.0 NZ B:KCX192 4.2 45.8 1.0 CG B:GLU195 4.2 50.0 1.0 CB B:ASP194 4.3 44.7 1.0 HZ2 B:LYS167 4.3 59.3 1.0 HG12 B:ILE165 4.3 47.1 1.0 CE1 B:HIS288 4.3 41.6 1.0 C1 B:CAP501 4.3 52.9 1.0 C4 B:CAP501 4.4 57.1 1.0 CB B:GLU195 4.4 48.9 1.0 C B:ASP194 4.4 49.5 1.0 CG2 B:ILE165 4.4 50.2 1.0 HD3 B:PRO196 4.5 52.9 1.0 H4 B:CAP501 4.6 57.8 1.0 H51 B:CAP501 4.6 54.9 1.0 CA B:GLU195 4.6 47.8 1.0 CG A:ASN112 4.7 67.0 1.0 HG23 B:ILE165 4.7 50.0 1.0 H11 B:CAP501 4.7 53.0 1.0 O1 B:CAP501 4.7 51.9 1.0 CD2 B:HIS288 4.7 41.3 1.0 HB3 B:ASP194 4.8 41.2 1.0 HG3 B:GLU195 4.8 50.0 1.0 HG3 B:LYS169 4.8 52.5 1.0 H52 B:CAP501 4.9 54.4 1.0 C5 B:CAP501 4.9 55.2 1.0 O B:HOH697 4.9 55.7 1.0 H12 B:CAP501 4.9 52.8 1.0 HG22 B:ILE165 4.9 51.1 1.0 HG2 B:GLU195 5.0 50.2 1.0 O B:HOH683 5.0 53.6 1.0

M.A.Arbing, S.Satagopan, V.A.Varaljay, F.R.Tabita. Structure Function Studies of R. Palustris Rubisco. To Be Published.