Magnesium in PDB 8vgs: Cabp-Bound Decameric Rubisco From Candidatus Methanofastidiosum Methylthiophilus

All present enzymatic activity of Cabp-Bound Decameric Rubisco From Candidatus Methanofastidiosum Methylthiophilus:
4.1.1.39;

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20;

Binding sites:

The binding sites of Magnesium atom in the Cabp-Bound Decameric Rubisco From Candidatus Methanofastidiosum Methylthiophilus (pdb code 8vgs). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 20 binding sites of Magnesium where determined in the Cabp-Bound Decameric Rubisco From Candidatus Methanofastidiosum Methylthiophilus, PDB code: 8vgs:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 20 in the Cabp-Bound Decameric Rubisco From Candidatus Methanofastidiosum Methylthiophilus


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Cabp-Bound Decameric Rubisco From Candidatus Methanofastidiosum Methylthiophilus within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg501 b:14.6 occ:1.00 OD1 A:ASP196 2.0 19.2 1.0 OE1 A:GLU197 2.1 18.6 1.0 HO2 A:CAP504 2.3 20.9 1.0 OQ2 A:KCX194 2.3 14.6 1.0 O7 A:CAP504 2.3 26.1 1.0 O3 A:CAP504 2.4 25.8 1.0 O2 A:CAP504 2.5 21.8 1.0 HO3 A:CAP504 2.6 20.0 1.0 C A:CAP504 3.0 25.8 1.0 CD A:GLU197 3.0 11.1 1.0 C2 A:CAP504 3.0 22.1 1.0 CG A:ASP196 3.1 21.0 1.0 CX A:KCX194 3.2 6.9 1.0 C3 A:CAP504 3.3 21.8 1.0 OE2 A:GLU197 3.3 21.1 1.0 OQ1 A:KCX194 3.4 14.2 1.0 ND2 B:ASN116 3.5 9.6 1.0 OD2 A:ASP196 3.7 20.4 1.0 NZ A:LYS170 3.7 13.8 1.0 N A:GLU197 3.8 10.2 1.0 NE2 A:HIS289 3.9 10.8 1.0 NZ A:LYS168 3.9 25.4 1.0 H3 A:CAP504 3.9 21.3 1.0 O6 A:CAP504 4.1 28.2 1.0 CA A:ASP196 4.1 7.4 1.0 CB A:ASP196 4.2 12.1 1.0 CG2 A:ILE166 4.2 19.7 1.0 CG A:GLU197 4.3 7.0 1.0 H4 A:CAP504 4.4 22.6 1.0 C4 A:CAP504 4.4 22.3 1.0 NZ A:KCX194 4.4 5.7 1.0 CB A:GLU197 4.5 9.8 1.0 C1 A:CAP504 4.5 25.3 1.0 C A:ASP196 4.5 9.6 1.0 CE1 A:HIS289 4.7 10.0 1.0 H51 A:CAP504 4.8 20.5 1.0 CG B:ASN116 4.8 6.8 1.0 CD2 A:HIS289 4.8 4.6 1.0 CA A:GLU197 4.8 10.8 1.0 OE2 B:GLU58 4.9 23.4 1.0 O1 A:CAP504 4.9 25.4 1.0 H11 A:CAP504 5.0 23.1 1.0

Magnesium binding site 2 out of 20 in the Cabp-Bound Decameric Rubisco From Candidatus Methanofastidiosum Methylthiophilus


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Cabp-Bound Decameric Rubisco From Candidatus Methanofastidiosum Methylthiophilus within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg502 b:15.3 occ:1.00 OE2 A:GLU180 2.0 19.1 1.0 OD2 C:ASP369 2.3 41.5 1.0 OD1 A:ASP184 2.4 18.9 1.0 OD2 C:ASP367 2.5 43.3 1.0 OD2 A:ASP184 2.5 25.1 1.0 CG A:ASP184 2.8 19.5 1.0 OD1 C:ASP367 3.0 44.3 1.0 CG C:ASP367 3.1 41.5 1.0 CD A:GLU180 3.1 13.9 1.0 CG C:ASP369 3.3 41.4 1.0 CG A:GLU180 3.6 9.7 1.0 CB C:ASP369 3.8 38.8 1.0 OE1 A:GLU180 4.2 19.2 1.0 CB A:ASP184 4.3 17.0 1.0 N C:ASP369 4.4 41.7 1.0 O A:GLU180 4.4 12.9 1.0 OD1 C:ASP369 4.4 39.7 1.0 NH2 C:ARG390 4.5 25.5 1.0 CB C:ASP367 4.6 41.1 1.0 CA C:ASP369 4.8 39.6 1.0 CD2 A:TYR183 4.9 16.5 1.0 CB A:GLU180 5.0 10.2 1.0

Magnesium binding site 3 out of 20 in the Cabp-Bound Decameric Rubisco From Candidatus Methanofastidiosum Methylthiophilus


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Cabp-Bound Decameric Rubisco From Candidatus Methanofastidiosum Methylthiophilus within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg503 b:26.4 occ:1.00 OE2 G:GLU180 2.0 16.7 1.0 OD1 G:ASP184 2.3 18.5 1.0 OD2 A:ASP369 2.3 38.3 1.0 OD2 A:ASP367 2.4 40.4 1.0 OD2 G:ASP184 2.6 26.0 1.0 CG G:ASP184 2.7 17.7 1.0 CD G:GLU180 3.1 12.3 1.0 CG A:ASP367 3.2 41.8 1.0 OD1 A:ASP367 3.2 42.4 1.0 CG A:ASP369 3.4 38.9 1.0 CG G:GLU180 3.7 7.2 1.0 CB A:ASP369 3.8 38.1 1.0 OE1 G:GLU180 4.2 15.2 1.0 CB G:ASP184 4.2 13.8 1.0 NH2 A:ARG390 4.3 25.7 1.0 O G:GLU180 4.4 11.0 1.0 N A:ASP369 4.4 39.7 1.0 OD1 A:ASP369 4.5 39.3 1.0 CB A:ASP367 4.6 41.8 1.0 CA A:ASP369 4.7 39.2 1.0 CD2 G:TYR183 4.8 11.9 1.0 CA G:ASP184 4.9 13.1 1.0

Magnesium binding site 4 out of 20 in the Cabp-Bound Decameric Rubisco From Candidatus Methanofastidiosum Methylthiophilus


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Cabp-Bound Decameric Rubisco From Candidatus Methanofastidiosum Methylthiophilus within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg501 b:41.9 occ:1.00 OD1 B:ASP196 1.7 23.3 1.0 HO2 B:CAP504 2.1 20.6 1.0 OQ1 B:KCX194 2.3 9.5 1.0 OE1 B:GLU197 2.3 18.0 1.0 O6 B:CAP504 2.5 26.1 1.0 O2 B:CAP504 2.5 22.1 1.0 O3 B:CAP504 2.6 24.7 1.0 CG B:ASP196 2.7 21.4 1.0 HO3 B:CAP504 2.9 20.2 1.0 CD B:GLU197 3.0 9.6 1.0 C B:CAP504 3.2 21.2 1.0 OE2 B:GLU197 3.2 24.6 1.0 C2 B:CAP504 3.2 21.7 1.0 OD2 B:ASP196 3.3 20.6 1.0 CX B:KCX194 3.5 1.8 1.0 NZ B:LYS170 3.5 14.9 1.0 C3 B:CAP504 3.5 20.1 1.0 NZ B:LYS168 3.7 23.2 1.0 ND2 A:ASN116 3.7 14.2 1.0 N B:GLU197 3.7 6.3 1.0 CB B:ASP196 3.9 13.6 1.0 CA B:ASP196 3.9 2.0 1.0 OQ2 B:KCX194 4.0 13.8 1.0 CG2 B:ILE166 4.0 18.4 1.0 H3 B:CAP504 4.2 19.8 1.0 NE2 B:HIS289 4.2 6.5 1.0 O7 B:CAP504 4.3 24.2 1.0 CG B:GLU197 4.3 5.3 1.0 C B:ASP196 4.4 7.3 1.0 NZ B:KCX194 4.5 2.5 1.0 CB B:GLU197 4.5 10.0 1.0 H4 B:CAP504 4.6 19.2 1.0 C1 B:CAP504 4.6 20.8 1.0 C4 B:CAP504 4.7 20.6 1.0 CA B:GLU197 4.8 9.0 1.0 OE2 A:GLU58 4.8 20.1 1.0 CE B:LYS170 4.9 13.5 1.0 CG A:ASN116 4.9 12.0 1.0 O1 B:CAP504 5.0 22.0 1.0 CE1 B:HIS289 5.0 6.1 1.0 CE B:LYS168 5.0 22.6 1.0

Magnesium binding site 5 out of 20 in the Cabp-Bound Decameric Rubisco From Candidatus Methanofastidiosum Methylthiophilus


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Cabp-Bound Decameric Rubisco From Candidatus Methanofastidiosum Methylthiophilus within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg502 b:14.8 occ:1.00 OE2 B:GLU180 2.0 21.0 1.0 OD2 F:ASP369 2.3 41.1 1.0 OD1 B:ASP184 2.4 19.7 1.0 OD2 F:ASP367 2.4 41.5 1.0 OD2 B:ASP184 2.5 27.8 1.0 CG B:ASP184 2.8 19.9 1.0 OD1 F:ASP367 3.1 41.7 1.0 CD B:GLU180 3.1 13.9 1.0 CG F:ASP367 3.1 40.2 1.0 CG F:ASP369 3.3 39.1 1.0 CG B:GLU180 3.6 7.9 1.0 CB F:ASP369 3.8 36.6 1.0 OE1 B:GLU180 4.2 17.7 1.0 CB B:ASP184 4.3 15.6 1.0 NH2 F:ARG390 4.4 25.0 1.0 N F:ASP369 4.4 36.6 1.0 OD1 F:ASP369 4.4 37.5 1.0 O B:GLU180 4.5 12.2 1.0 CB F:ASP367 4.6 39.5 1.0 CA F:ASP369 4.7 37.7 1.0 CD2 B:TYR183 4.9 16.3 1.0

Magnesium binding site 6 out of 20 in the Cabp-Bound Decameric Rubisco From Candidatus Methanofastidiosum Methylthiophilus


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Cabp-Bound Decameric Rubisco From Candidatus Methanofastidiosum Methylthiophilus within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg503 b:30.4 occ:1.00 OE2 D:GLU180 2.0 11.6 1.0 OD1 D:ASP184 2.3 14.6 1.0 OD2 B:ASP369 2.3 40.9 1.0 OD2 B:ASP367 2.3 42.2 1.0 OD2 D:ASP184 2.6 22.6 1.0 CG D:ASP184 2.8 12.7 1.0 CD D:GLU180 3.1 8.3 1.0 CG B:ASP367 3.2 42.7 1.0 OD1 B:ASP367 3.3 43.6 1.0 CG B:ASP369 3.4 39.9 1.0 CG D:GLU180 3.5 3.3 1.0 CB B:ASP369 3.7 39.3 1.0 OE1 D:GLU180 4.1 13.4 1.0 NH2 B:ARG390 4.2 27.4 1.0 CB D:ASP184 4.3 6.9 1.0 O D:GLU180 4.3 9.4 1.0 N B:ASP369 4.4 39.3 1.0 OD1 B:ASP369 4.5 39.1 1.0 CB B:ASP367 4.6 42.3 1.0 CD2 D:TYR183 4.7 7.4 1.0 CA B:ASP369 4.7 40.5 1.0 CE2 D:TYR183 4.9 10.2 1.0 CB D:GLU180 4.9 5.4 1.0 CA D:ASP184 5.0 7.1 1.0

Magnesium binding site 7 out of 20 in the Cabp-Bound Decameric Rubisco From Candidatus Methanofastidiosum Methylthiophilus


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Cabp-Bound Decameric Rubisco From Candidatus Methanofastidiosum Methylthiophilus within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg501 b:14.1 occ:1.00 OQ2 C:KCX194 2.0 11.2 1.0 OD1 C:ASP196 2.0 18.2 1.0 OE1 C:GLU197 2.1 14.4 1.0 HO2 C:CAP503 2.3 16.3 1.0 O3 C:CAP503 2.5 21.8 1.0 O7 C:CAP503 2.5 23.3 1.0 O2 C:CAP503 2.6 16.5 1.0 HO3 C:CAP503 2.7 15.5 1.0 CG C:ASP196 2.9 21.2 1.0 CD C:GLU197 3.0 6.8 1.0 CX C:KCX194 3.1 0.0 1.0 C C:CAP503 3.2 23.1 1.0 C2 C:CAP503 3.2 19.7 1.0 OE2 C:GLU197 3.3 19.7 1.0 OQ1 C:KCX194 3.4 7.8 1.0 OD2 C:ASP196 3.5 19.3 1.0 C3 C:CAP503 3.5 16.5 1.0 NZ C:LYS170 3.6 8.7 1.0 ND2 D:ASN116 3.6 4.0 1.0 N C:GLU197 3.8 4.1 1.0 NE2 C:HIS289 3.9 11.1 1.0 NZ C:LYS168 4.0 19.9 1.0 CA C:ASP196 4.1 0.4 1.0 CB C:ASP196 4.1 9.2 1.0 CG2 C:ILE166 4.1 15.5 1.0 H3 C:CAP503 4.1 16.9 1.0 NZ C:KCX194 4.2 6.5 1.0 CG C:GLU197 4.3 4.0 1.0 O6 C:CAP503 4.4 28.0 1.0 C C:ASP196 4.5 2.2 1.0 H4 C:CAP503 4.5 18.7 1.0 CB C:GLU197 4.5 5.8 1.0 C4 C:CAP503 4.6 20.5 1.0 C1 C:CAP503 4.7 21.9 1.0 CE1 C:HIS289 4.7 7.0 1.0 CD2 C:HIS289 4.8 1.8 1.0 CA C:GLU197 4.8 7.4 1.0 H51 C:CAP503 4.9 16.2 1.0 CG D:ASN116 4.9 1.8 1.0 OE2 D:GLU58 4.9 14.7 1.0

Magnesium binding site 8 out of 20 in the Cabp-Bound Decameric Rubisco From Candidatus Methanofastidiosum Methylthiophilus


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Cabp-Bound Decameric Rubisco From Candidatus Methanofastidiosum Methylthiophilus within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg502 b:10.8 occ:1.00 OE2 C:GLU180 2.0 18.9 1.0 OD2 E:ASP367 2.3 48.1 1.0 OD1 C:ASP184 2.4 16.4 1.0 OD2 E:ASP369 2.5 45.4 1.0 OD2 C:ASP184 2.5 27.6 1.0 CG C:ASP184 2.8 17.0 1.0 CG E:ASP367 3.0 47.1 1.0 CD C:GLU180 3.1 14.0 1.0 OD1 E:ASP367 3.1 48.4 1.0 CG E:ASP369 3.4 43.8 1.0 CG C:GLU180 3.6 7.8 1.0 CB E:ASP369 3.8 43.0 1.0 OE1 C:GLU180 4.2 18.1 1.0 CB C:ASP184 4.3 10.3 1.0 N E:ASP369 4.4 43.3 1.0 CB E:ASP367 4.5 47.0 1.0 O C:GLU180 4.5 13.1 1.0 NH2 E:ARG390 4.5 26.5 1.0 OD1 E:ASP369 4.5 42.8 1.0 CA E:ASP369 4.8 43.8 1.0 CD2 C:TYR183 4.9 10.2 1.0

Magnesium binding site 9 out of 20 in the Cabp-Bound Decameric Rubisco From Candidatus Methanofastidiosum Methylthiophilus


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Cabp-Bound Decameric Rubisco From Candidatus Methanofastidiosum Methylthiophilus within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg501 b:11.8 occ:1.00 OE1 D:GLU197 2.1 7.2 1.0 OQ1 D:KCX194 2.1 8.4 1.0 OD1 D:ASP196 2.1 17.0 1.0 HO2 D:CAP503 2.2 17.3 1.0 O3 D:CAP503 2.4 22.1 1.0 O2 D:CAP503 2.5 18.8 1.0 O6 D:CAP503 2.7 26.9 1.0 HO3 D:CAP503 2.8 16.5 1.0 CD D:GLU197 3.0 2.1 1.0 CG D:ASP196 3.0 14.1 1.0 CX D:KCX194 3.1 0.0 1.0 C2 D:CAP503 3.2 19.7 1.0 C D:CAP503 3.3 19.3 1.0 OE2 D:GLU197 3.3 18.1 1.0 OQ2 D:KCX194 3.3 0.8 1.0 C3 D:CAP503 3.4 17.5 1.0 OD2 D:ASP196 3.5 12.7 1.0 ND2 C:ASN116 3.7 14.7 1.0 N D:GLU197 3.7 0.0 1.0 NZ D:LYS170 3.8 9.7 1.0 NZ D:LYS168 3.9 13.3 1.0 NE2 D:HIS289 3.9 1.7 1.0 H3 D:CAP503 4.0 15.8 1.0 CA D:ASP196 4.0 1.3 1.0 CB D:ASP196 4.1 6.4 1.0 CG2 D:ILE166 4.1 11.4 1.0 NZ D:KCX194 4.2 0.1 1.0 CG D:GLU197 4.3 0.8 1.0 O7 D:CAP503 4.4 23.0 1.0 C D:ASP196 4.4 1.3 1.0 CB D:GLU197 4.5 2.7 1.0 H4 D:CAP503 4.5 15.6 1.0 C4 D:CAP503 4.6 18.5 1.0 CE1 D:HIS289 4.6 2.6 1.0 C1 D:CAP503 4.7 16.4 1.0 CA D:GLU197 4.7 5.2 1.0 CD2 D:HIS289 4.8 0.0 1.0 CG C:ASN116 4.9 8.0 1.0 H51 D:CAP503 5.0 15.8 1.0

Magnesium binding site 10 out of 20 in the Cabp-Bound Decameric Rubisco From Candidatus Methanofastidiosum Methylthiophilus


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Cabp-Bound Decameric Rubisco From Candidatus Methanofastidiosum Methylthiophilus within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg502 b:14.8 occ:1.00 OD2 D:ASP367 2.2 24.1 1.0 OE2 J:GLU180 2.3 19.6 1.0 OD2 J:ASP184 2.5 28.4 1.0 OD2 D:ASP369 2.5 24.1 1.0 OD1 J:ASP184 2.5 22.6 1.0 CG J:ASP184 2.8 18.5 1.0 OD1 D:ASP367 2.8 29.3 1.0 CG D:ASP367 2.9 24.9 1.0 CD J:GLU180 3.3 13.9 1.0 CG D:ASP369 3.5 24.1 1.0 CG J:GLU180 3.7 8.1 1.0 CB D:ASP369 3.8 23.6 1.0 N D:ASP369 4.3 24.1 1.0 CB D:ASP367 4.3 23.9 1.0 CB J:ASP184 4.4 16.2 1.0 OE1 J:GLU180 4.4 18.3 1.0 NH2 D:ARG390 4.5 17.0 1.0 O J:GLU180 4.6 11.7 1.0 OD1 D:ASP369 4.6 25.0 1.0 CA D:ASP369 4.7 24.6 1.0 N D:LYS368 4.9 25.1 1.0

B.P.Kaeser, A.K.Liu. Cabp-Bound Decameric Rubisco From Candidatus Methanofastidiosum Methylthiophilus To Be Published.