Magnesium in PDB 6z1f: Cryoem Structure of Rubisco Activase with Its Substrate Rubisco From Nostoc Sp. (Strain PCC7120)

Enzymatic activity of Cryoem Structure of Rubisco Activase with Its Substrate Rubisco From Nostoc Sp. (Strain PCC7120)

Magnesium Binding Sites:

Magnesium binding site 1 out of 12 in 6z1f

Magnesium Binding Sites List in 6z1f

Magnesium binding site 1 out of 12 in the Cryoem Structure of Rubisco Activase with Its Substrate Rubisco From Nostoc Sp. (Strain PCC7120)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Cryoem Structure of Rubisco Activase with Its Substrate Rubisco From Nostoc Sp. (Strain PCC7120) within 5.0Å range: probe atom residue distance (Å) B Occ 2:Mg302 b:23.6 occ:1.00 O2G 2:AGS301 1.9 43.3 1.0 O2B 2:AGS301 2.3 39.6 1.0 OG1 2:THR44 2.4 45.4 1.0 O2A 2:AGS301 3.1 38.0 1.0 PG 2:AGS301 3.2 42.8 1.0 PB 2:AGS301 3.5 39.1 1.0 O3B 2:AGS301 3.6 40.7 1.0 CB 2:THR44 3.6 45.0 1.0 S1G 2:AGS301 4.0 44.2 1.0 ND2 2:ASN101 4.1 82.4 1.0 OD1 2:ASN101 4.1 80.1 1.0 NH2 3:ARG172 4.2 46.4 1.0 PA 2:AGS301 4.3 38.2 1.0 O3A 2:AGS301 4.3 38.9 1.0 CG2 2:THR44 4.3 47.6 1.0 O3G 2:AGS301 4.3 42.1 1.0 N 2:THR44 4.6 42.4 1.0 CG 2:ASN101 4.6 78.3 1.0 CA 2:THR44 4.7 44.0 1.0 O1B 2:AGS301 4.7 39.4 1.0 OD2 3:ASP132 4.8 75.2 1.0 NH2 3:ARG169 4.8 56.6 1.0 O1A 2:AGS301 4.8 38.5 1.0 CG2 2:THR156 4.9 39.7 1.0

Magnesium binding site 2 out of 12 in 6z1f

Magnesium Binding Sites List in 6z1f

Magnesium binding site 2 out of 12 in the Cryoem Structure of Rubisco Activase with Its Substrate Rubisco From Nostoc Sp. (Strain PCC7120)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Cryoem Structure of Rubisco Activase with Its Substrate Rubisco From Nostoc Sp. (Strain PCC7120) within 5.0Å range: probe atom residue distance (Å) B Occ 3:Mg302 b:37.7 occ:1.00 O2G 3:AGS301 2.2 60.7 1.0 OG1 3:THR44 2.7 46.0 1.0 O2A 3:AGS301 2.9 46.0 1.0 O2B 3:AGS301 3.0 46.6 1.0 O3B 3:AGS301 3.4 53.5 1.0 PG 3:AGS301 3.4 60.0 1.0 CB 3:THR44 3.5 45.6 1.0 NH2 4:ARG172 3.6 56.3 1.0 ND2 3:ASN101 3.7 86.1 1.0 PB 3:AGS301 3.8 47.2 1.0 OD2 4:ASP132 3.9 82.5 1.0 CG2 3:THR44 4.2 45.2 1.0 S1G 3:AGS301 4.2 61.7 1.0 PA 3:AGS301 4.3 45.7 1.0 OD1 3:ASN101 4.4 83.5 1.0 CG 3:ASN101 4.6 81.8 1.0 O3A 3:AGS301 4.6 46.5 1.0 O3G 3:AGS301 4.6 59.0 1.0 CZ 4:ARG172 4.7 55.9 1.0 CA 3:THR44 4.8 45.5 1.0 N 3:THR44 4.8 45.1 1.0 O1A 3:AGS301 4.8 46.4 1.0 NH1 4:ARG169 4.9 52.7 1.0

Magnesium binding site 3 out of 12 in 6z1f

Magnesium Binding Sites List in 6z1f

Magnesium binding site 3 out of 12 in the Cryoem Structure of Rubisco Activase with Its Substrate Rubisco From Nostoc Sp. (Strain PCC7120)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Cryoem Structure of Rubisco Activase with Its Substrate Rubisco From Nostoc Sp. (Strain PCC7120) within 5.0Å range: probe atom residue distance (Å) B Occ 4:Mg302 b:72.2 occ:1.00 O2G 4:AGS301 1.9 72.2 1.0 O2A 4:AGS301 1.9 52.0 1.0 O3B 4:AGS301 2.1 62.6 1.0 PG 4:AGS301 2.5 71.8 1.0 O2B 4:AGS301 2.6 56.4 1.0 OG1 4:THR44 2.7 45.2 1.0 PB 4:AGS301 2.9 55.5 1.0 PA 4:AGS301 3.2 51.2 1.0 CB 4:THR44 3.4 44.6 1.0 O3G 4:AGS301 3.5 72.4 1.0 O3A 4:AGS301 3.5 53.8 1.0 NH1 5:ARG169 3.6 77.6 1.0 NH2 5:ARG169 3.9 74.1 1.0 O1A 4:AGS301 4.0 51.7 1.0 S1G 4:AGS301 4.1 75.2 1.0 OD2 5:ASP132 4.2 82.1 1.0 NH2 5:ARG172 4.2 44.4 1.0 CZ 5:ARG169 4.2 75.3 1.0 O1B 4:AGS301 4.3 56.1 1.0 CG2 4:THR44 4.3 44.2 1.0 OD1 5:ASP132 4.3 79.7 1.0 N 4:THR44 4.4 45.1 1.0 O5' 4:AGS301 4.4 51.3 1.0 CA 4:THR44 4.5 44.9 1.0 CG 5:ASP132 4.6 79.0 1.0 CZ 5:ARG172 5.0 44.4 1.0

Magnesium binding site 4 out of 12 in 6z1f

Magnesium Binding Sites List in 6z1f

Magnesium binding site 4 out of 12 in the Cryoem Structure of Rubisco Activase with Its Substrate Rubisco From Nostoc Sp. (Strain PCC7120)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Cryoem Structure of Rubisco Activase with Its Substrate Rubisco From Nostoc Sp. (Strain PCC7120) within 5.0Å range: probe atom residue distance (Å) B Occ 5:Mg302 b:28.3 occ:1.00 O2G 5:AGS301 1.8 44.6 1.0 O2A 5:AGS301 2.4 40.1 1.0 O2B 5:AGS301 2.4 41.6 1.0 OG1 5:THR44 2.7 32.2 1.0 PG 5:AGS301 3.0 44.2 1.0 O3B 5:AGS301 3.0 42.6 1.0 PB 5:AGS301 3.3 41.6 1.0 OD2 6:ASP132 3.4 65.8 1.0 CB 5:THR44 3.5 32.3 1.0 PA 5:AGS301 3.6 40.6 1.0 O3A 5:AGS301 4.0 41.5 1.0 S1G 5:AGS301 4.0 47.0 1.0 O1A 5:AGS301 4.1 40.8 1.0 O3G 5:AGS301 4.1 44.6 1.0 NH2 6:ARG172 4.1 36.6 1.0 OD1 5:ASN101 4.4 62.8 1.0 CG2 5:THR44 4.4 32.7 1.0 N 5:THR44 4.4 34.1 1.0 CG 6:ASP132 4.4 65.9 1.0 O1B 5:AGS301 4.6 41.7 1.0 CA 5:THR44 4.6 33.8 1.0 OD1 6:ASP132 4.8 67.3 1.0 NH1 6:ARG169 4.8 53.5 1.0 ND2 5:ASN101 4.9 62.2 1.0 NH1 6:ARG172 4.9 37.3 1.0 O5' 5:AGS301 4.9 40.7 1.0 CZ 6:ARG172 5.0 37.4 1.0

Magnesium binding site 5 out of 12 in 6z1f

Magnesium Binding Sites List in 6z1f

Magnesium binding site 5 out of 12 in the Cryoem Structure of Rubisco Activase with Its Substrate Rubisco From Nostoc Sp. (Strain PCC7120)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Cryoem Structure of Rubisco Activase with Its Substrate Rubisco From Nostoc Sp. (Strain PCC7120) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg501 b:52.9 occ:1.00 OQ2 A:KCX202 2.2 42.1 1.0 OD1 A:ASP204 2.5 52.8 1.0 O2 A:CAP502 2.6 80.6 1.0 O7 A:CAP502 2.7 81.3 1.0 OE1 A:GLU205 2.8 52.5 1.0 O3 A:CAP502 2.8 81.0 1.0 CD A:GLU205 3.4 52.6 1.0 OE2 A:GLU205 3.4 52.9 1.0 CG A:ASP204 3.4 52.2 1.0 C2 A:CAP502 3.4 80.9 1.0 C A:CAP502 3.5 81.8 1.0 CX A:KCX202 3.5 42.1 1.0 CB A:ASP204 3.6 50.7 1.0 CA A:ASP204 3.7 49.4 1.0 C3 A:CAP502 3.7 81.1 1.0 N A:GLU205 3.9 49.5 1.0 OQ1 A:KCX202 4.1 42.4 1.0 NZ A:LYS176 4.1 47.5 1.0 CE A:LYS178 4.3 56.0 1.0 CG2 A:THR174 4.3 42.4 1.0 C A:ASP204 4.4 49.4 1.0 NZ A:KCX202 4.4 42.1 1.0 NZ A:LYS178 4.5 57.5 1.0 OD2 A:ASP204 4.6 53.1 1.0 O6 A:CAP502 4.7 82.6 1.0 NE2 A:HIS295 4.7 32.1 1.0 CG A:GLU205 4.7 51.6 1.0 C1 A:CAP502 4.8 80.2 1.0 N A:ASP204 4.9 48.4 1.0 CB A:GLU205 4.9 50.5 1.0 C4 A:CAP502 4.9 81.7 1.0 CG A:LYS178 5.0 53.9 1.0 ND2 B:ASN124 5.0 54.4 1.0

Magnesium binding site 6 out of 12 in 6z1f

Magnesium Binding Sites List in 6z1f

Magnesium binding site 6 out of 12 in the Cryoem Structure of Rubisco Activase with Its Substrate Rubisco From Nostoc Sp. (Strain PCC7120)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Cryoem Structure of Rubisco Activase with Its Substrate Rubisco From Nostoc Sp. (Strain PCC7120) within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg501 b:37.8 occ:1.00 OQ1 B:KCX202 2.2 40.4 1.0 OE1 B:GLU205 2.6 49.9 1.0 CD B:GLU205 3.4 49.5 1.0 OE2 B:GLU205 3.5 50.0 1.0 CX B:KCX202 3.5 40.4 1.0 OD1 B:ASP204 3.9 48.4 1.0 OQ2 B:KCX202 3.9 41.0 1.0 ND2 A:ASN124 4.3 53.1 1.0 NZ B:LYS176 4.4 65.7 1.0 CD B:LYS178 4.5 65.6 1.0 NE2 B:HIS295 4.5 31.6 1.0 NZ B:KCX202 4.5 39.6 1.0 CB B:ASP204 4.8 46.3 1.0 CG2 B:THR174 4.8 46.0 1.0 CG B:ASP204 4.8 48.0 1.0 N B:GLU205 4.8 45.7 1.0 CG B:GLU205 4.9 48.5 1.0 CA B:ASP204 4.9 44.6 1.0 NZ B:LYS178 5.0 68.0 1.0

Magnesium binding site 7 out of 12 in 6z1f

Magnesium Binding Sites List in 6z1f

Magnesium binding site 7 out of 12 in the Cryoem Structure of Rubisco Activase with Its Substrate Rubisco From Nostoc Sp. (Strain PCC7120)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Cryoem Structure of Rubisco Activase with Its Substrate Rubisco From Nostoc Sp. (Strain PCC7120) within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg501 b:69.0 occ:1.00 OQ2 C:KCX202 2.1 44.0 1.0 O7 C:CAP502 2.6 71.0 1.0 OE1 C:GLU205 2.6 52.1 1.0 O2 C:CAP502 2.8 69.2 1.0 OD1 C:ASP204 2.9 50.8 1.0 NZ C:LYS176 3.4 41.2 1.0 CD C:GLU205 3.5 52.2 1.0 CX C:KCX202 3.5 43.9 1.0 C C:CAP502 3.5 70.7 1.0 OE2 C:GLU205 3.6 52.6 1.0 O3 C:CAP502 3.6 68.1 1.0 CB C:ASP204 3.7 49.6 1.0 C2 C:CAP502 3.7 69.5 1.0 CG C:ASP204 3.7 51.0 1.0 CA C:ASP204 3.8 48.2 1.0 CD C:LYS178 4.1 42.6 1.0 CG2 C:THR174 4.1 40.6 1.0 OQ1 C:KCX202 4.1 44.1 1.0 N C:GLU205 4.1 48.3 1.0 CG C:LYS178 4.3 42.8 1.0 NZ C:KCX202 4.3 43.1 1.0 C3 C:CAP502 4.3 68.9 1.0 C C:ASP204 4.5 48.0 1.0 O6 C:CAP502 4.6 71.3 1.0 CE C:LYS176 4.8 41.2 1.0 NZ C:LYS178 4.9 43.9 1.0 CG C:GLU205 4.9 51.0 1.0 OD2 C:ASP204 4.9 51.5 1.0 C1 C:CAP502 5.0 69.4 1.0 O1 C:CAP502 5.0 68.2 1.0 N C:ASP204 5.0 47.1 1.0

Magnesium binding site 8 out of 12 in 6z1f

Magnesium Binding Sites List in 6z1f

Magnesium binding site 8 out of 12 in the Cryoem Structure of Rubisco Activase with Its Substrate Rubisco From Nostoc Sp. (Strain PCC7120)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Cryoem Structure of Rubisco Activase with Its Substrate Rubisco From Nostoc Sp. (Strain PCC7120) within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg501 b:45.0 occ:1.00 OQ1 D:KCX202 2.2 40.0 1.0 O6 D:CAP502 2.6 77.3 1.0 OE1 D:GLU205 2.6 50.6 1.0 O2 D:CAP502 2.8 76.0 1.0 OD1 D:ASP204 2.9 48.0 1.0 NZ D:LYS176 3.3 39.0 1.0 CX D:KCX202 3.5 39.8 1.0 C D:CAP502 3.5 77.1 1.0 CD D:GLU205 3.5 50.0 1.0 OE2 D:GLU205 3.6 50.1 1.0 CB D:ASP204 3.6 46.3 1.0 O3 D:CAP502 3.7 76.2 1.0 CG D:ASP204 3.7 47.8 1.0 C2 D:CAP502 3.7 76.4 1.0 CA D:ASP204 3.8 45.0 1.0 CD D:LYS178 4.1 40.6 1.0 CG2 D:THR174 4.1 39.4 1.0 OQ2 D:KCX202 4.1 40.0 1.0 N D:GLU205 4.1 46.0 1.0 CG D:LYS178 4.3 40.6 1.0 NZ D:KCX202 4.3 39.4 1.0 C3 D:CAP502 4.4 76.4 1.0 C D:ASP204 4.5 45.6 1.0 O7 D:CAP502 4.6 77.3 1.0 CE D:LYS176 4.8 39.2 1.0 NZ D:LYS178 4.9 41.4 1.0 CG D:GLU205 4.9 48.8 1.0 OD2 D:ASP204 4.9 48.3 1.0 C1 D:CAP502 5.0 75.6 1.0 O1 D:CAP502 5.0 73.7 1.0 N D:ASP204 5.0 43.4 1.0

Magnesium binding site 9 out of 12 in 6z1f

Magnesium Binding Sites List in 6z1f

Magnesium binding site 9 out of 12 in the Cryoem Structure of Rubisco Activase with Its Substrate Rubisco From Nostoc Sp. (Strain PCC7120)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Cryoem Structure of Rubisco Activase with Its Substrate Rubisco From Nostoc Sp. (Strain PCC7120) within 5.0Å range: probe atom residue distance (Å) B Occ E:Mg501 b:77.3 occ:1.00 OQ2 E:KCX202 2.2 43.8 1.0 O2 E:CAP502 2.6 89.2 1.0 OE1 E:GLU205 2.7 54.4 1.0 OD1 E:ASP204 2.8 51.0 1.0 O7 E:CAP502 2.9 89.8 1.0 O3 E:CAP502 3.1 87.2 1.0 CD E:GLU205 3.4 54.4 1.0 OE2 E:GLU205 3.5 54.6 1.0 CX E:KCX202 3.5 43.5 1.0 C2 E:CAP502 3.5 89.4 1.0 NZ E:LYS176 3.6 50.7 1.0 C E:CAP502 3.6 89.8 1.0 CG E:ASP204 3.6 51.3 1.0 CB E:ASP204 3.6 50.3 1.0 CA E:ASP204 3.8 49.5 1.0 CD E:LYS178 3.9 53.1 1.0 N E:GLU205 4.0 50.6 1.0 C3 E:CAP502 4.0 87.9 1.0 CG2 E:THR174 4.2 47.5 1.0 OQ1 E:KCX202 4.3 43.7 1.0 NZ E:KCX202 4.3 42.8 1.0 C E:ASP204 4.4 50.0 1.0 CG E:LYS178 4.7 52.9 1.0 CG E:GLU205 4.7 53.8 1.0 NZ E:LYS178 4.7 53.6 1.0 O6 E:CAP502 4.8 89.9 1.0 C1 E:CAP502 4.8 90.1 1.0 OD2 E:ASP204 4.8 51.9 1.0 CE E:LYS178 4.9 53.1 1.0 CE E:LYS176 4.9 50.5 1.0 ND2 F:ASN124 4.9 64.5 1.0 NE2 E:HIS295 4.9 34.6 1.0 N E:ASP204 4.9 48.0 1.0

Magnesium binding site 10 out of 12 in 6z1f

Magnesium Binding Sites List in 6z1f

Magnesium binding site 10 out of 12 in the Cryoem Structure of Rubisco Activase with Its Substrate Rubisco From Nostoc Sp. (Strain PCC7120)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Cryoem Structure of Rubisco Activase with Its Substrate Rubisco From Nostoc Sp. (Strain PCC7120) within 5.0Å range: probe atom residue distance (Å) B Occ F:Mg501 b:50.1 occ:1.00 OQ1 F:KCX202 2.2 40.1 1.0 O6 F:CAP502 2.6 91.4 1.0 O2 F:CAP502 2.7 91.2 1.0 OD1 F:ASP204 2.7 50.2 1.0 OE1 F:GLU205 2.8 49.3 1.0 O3 F:CAP502 3.3 89.8 1.0 OE2 F:GLU205 3.3 49.1 1.0 CD F:GLU205 3.4 49.0 1.0 C F:CAP502 3.5 91.7 1.0 CX F:KCX202 3.5 40.1 1.0 C2 F:CAP502 3.6 91.0 1.0 CG F:ASP204 3.6 50.0 1.0 NZ F:LYS176 3.6 51.3 1.0 CB F:ASP204 3.6 48.2 1.0 CA F:ASP204 3.8 46.8 1.0 CD F:LYS178 3.8 52.4 1.0 N F:GLU205 4.0 46.8 1.0 C3 F:CAP502 4.1 90.6 1.0 OQ2 F:KCX202 4.1 40.5 1.0 CG2 F:THR174 4.2 47.7 1.0 NZ F:KCX202 4.3 39.7 1.0 C F:ASP204 4.5 46.9 1.0 O7 F:CAP502 4.7 92.7 1.0 CG F:LYS178 4.7 52.1 1.0 NZ F:LYS178 4.7 53.1 1.0 CG F:GLU205 4.8 48.1 1.0 CE F:LYS176 4.8 51.7 1.0 OD2 F:ASP204 4.8 51.0 1.0 CE F:LYS178 4.9 52.5 1.0 C1 F:CAP502 4.9 90.7 1.0 NE2 F:HIS295 4.9 35.6 1.0 N F:ASP204 5.0 45.3 1.0

Reference: