Magnesium in PDB 6ref: Cryo-Em Structure of Polytomella F-Atp Synthase, Rotary Substate 3B, Monomer-Masked Refinement

Enzymatic activity of Cryo-Em Structure of Polytomella F-Atp Synthase, Rotary Substate 3B, Monomer-Masked Refinement

Other elements in 6ref:

Magnesium Binding Sites:

Magnesium binding site 1 out of 5 in 6ref

Magnesium Binding Sites List in 6ref

Magnesium binding site 1 out of 5 in the Cryo-Em Structure of Polytomella F-Atp Synthase, Rotary Substate 3B, Monomer-Masked Refinement


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Cryo-Em Structure of Polytomella F-Atp Synthase, Rotary Substate 3B, Monomer-Masked Refinement within 5.0Å range: probe atom residue distance (Å) B Occ T:Mg1002 b:35.2 occ:1.00 OG1 T:THR232 2.2 32.8 1.0 O3G T:ATP1001 2.3 36.8 1.0 O2B T:ATP1001 2.6 36.8 1.0 OD2 T:ASP325 3.1 34.3 1.0 CB T:THR232 3.5 32.8 1.0 PG T:ATP1001 3.6 36.8 1.0 PB T:ATP1001 3.9 36.8 1.0 O3B T:ATP1001 4.0 36.8 1.0 CG2 T:THR232 4.1 32.8 1.0 CG T:ASP325 4.1 34.3 1.0 O1G T:ATP1001 4.2 36.8 1.0 NE2 T:GLN264 4.3 32.4 1.0 O2A T:ATP1001 4.4 36.8 1.0 OD1 T:ASP325 4.4 34.3 1.0 CA T:THR232 4.6 32.8 1.0 N T:THR232 4.6 32.8 1.0 O1B T:ATP1001 4.8 36.8 1.0 O2G T:ATP1001 4.8 36.8 1.0 OD2 T:ASP326 4.8 36.6 1.0 CD T:GLN264 5.0 32.4 1.0 O3A T:ATP1001 5.0 36.8 1.0

Magnesium binding site 2 out of 5 in 6ref

Magnesium Binding Sites List in 6ref

Magnesium binding site 2 out of 5 in the Cryo-Em Structure of Polytomella F-Atp Synthase, Rotary Substate 3B, Monomer-Masked Refinement


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Cryo-Em Structure of Polytomella F-Atp Synthase, Rotary Substate 3B, Monomer-Masked Refinement within 5.0Å range: probe atom residue distance (Å) B Occ U:Mg1002 b:37.9 occ:1.00 O3G U:ATP1001 2.2 40.5 1.0 OG1 U:THR232 2.2 33.4 1.0 O1B U:ATP1001 2.5 40.5 1.0 OD1 U:ASP325 3.5 29.5 1.0 PG U:ATP1001 3.6 40.5 1.0 CB U:THR232 3.6 33.4 1.0 PB U:ATP1001 3.7 40.5 1.0 O3B U:ATP1001 3.9 40.5 1.0 OD2 U:ASP325 4.1 29.5 1.0 CG U:ASP325 4.2 29.5 1.0 O1G U:ATP1001 4.2 40.5 1.0 OD1 U:ASP326 4.3 33.1 1.0 CG2 U:THR232 4.3 33.4 1.0 OD2 U:ASP326 4.4 33.1 1.0 O2B U:ATP1001 4.4 40.5 1.0 N U:THR232 4.5 33.4 1.0 CA U:THR232 4.6 33.4 1.0 O2A U:ATP1001 4.6 40.5 1.0 CG U:ASP326 4.7 33.1 1.0 O2G U:ATP1001 4.7 40.5 1.0 NE2 U:GLN264 4.8 29.7 1.0 O3A U:ATP1001 4.9 40.5 1.0

Magnesium binding site 3 out of 5 in 6ref

Magnesium Binding Sites List in 6ref

Magnesium binding site 3 out of 5 in the Cryo-Em Structure of Polytomella F-Atp Synthase, Rotary Substate 3B, Monomer-Masked Refinement


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Cryo-Em Structure of Polytomella F-Atp Synthase, Rotary Substate 3B, Monomer-Masked Refinement within 5.0Å range: probe atom residue distance (Å) B Occ V:Mg1002 b:31.4 occ:1.00 OG1 V:THR232 2.2 31.3 1.0 O1B V:ATP1001 2.5 37.9 1.0 O3G V:ATP1001 2.7 37.9 1.0 O1G V:ATP1001 3.1 37.9 1.0 PG V:ATP1001 3.4 37.9 1.0 OD2 V:ASP325 3.5 28.7 1.0 CB V:THR232 3.5 31.3 1.0 PB V:ATP1001 3.8 37.9 1.0 OD1 V:ASP325 4.0 28.7 1.0 CG2 V:THR232 4.0 31.3 1.0 O3B V:ATP1001 4.1 37.9 1.0 O1A V:ATP1001 4.1 37.9 1.0 CG V:ASP325 4.1 28.7 1.0 OD2 V:ASP326 4.2 30.1 1.0 NE2 V:GLN264 4.5 27.3 1.0 CA V:THR232 4.6 31.3 1.0 N V:THR232 4.6 31.3 1.0 O2B V:ATP1001 4.8 37.9 1.0 O2G V:ATP1001 4.8 37.9 1.0 CG V:ASP326 4.9 30.1 1.0 CD V:GLN264 4.9 27.3 1.0 O3A V:ATP1001 4.9 37.9 1.0

Magnesium binding site 4 out of 5 in 6ref

Magnesium Binding Sites List in 6ref

Magnesium binding site 4 out of 5 in the Cryo-Em Structure of Polytomella F-Atp Synthase, Rotary Substate 3B, Monomer-Masked Refinement


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Cryo-Em Structure of Polytomella F-Atp Synthase, Rotary Substate 3B, Monomer-Masked Refinement within 5.0Å range: probe atom residue distance (Å) B Occ X:Mg602 b:37.0 occ:1.00 OG1 X:THR190 2.3 38.8 1.0 O2B X:ADP601 2.3 43.8 1.0 OE2 X:GLU215 3.1 31.9 1.0 PB X:ADP601 3.5 43.8 1.0 OE2 X:GLU219 3.6 35.0 1.0 CB X:THR190 3.7 38.8 1.0 NH1 X:ARG216 3.7 31.4 1.0 CD X:GLU215 3.9 31.9 1.0 O1B X:ADP601 4.0 43.8 1.0 OE1 X:GLU219 4.1 35.0 1.0 O3B X:ADP601 4.3 43.8 1.0 CD X:GLU219 4.3 35.0 1.0 OD1 X:ASP285 4.3 33.0 1.0 ND2 X:ASN286 4.3 31.1 1.0 CG2 X:THR190 4.4 38.8 1.0 N X:THR190 4.4 38.8 1.0 OD2 X:ASP285 4.4 33.0 1.0 OE1 X:GLU215 4.4 31.9 1.0 O1A X:ADP601 4.5 43.8 1.0 CA X:THR190 4.6 38.8 1.0 CG X:GLU215 4.6 31.9 1.0 O3A X:ADP601 4.7 43.8 1.0 CG X:ASP285 4.8 33.0 1.0 CE X:LYS189 4.9 36.5 1.0

Magnesium binding site 5 out of 5 in 6ref

Magnesium Binding Sites List in 6ref

Magnesium binding site 5 out of 5 in the Cryo-Em Structure of Polytomella F-Atp Synthase, Rotary Substate 3B, Monomer-Masked Refinement


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Cryo-Em Structure of Polytomella F-Atp Synthase, Rotary Substate 3B, Monomer-Masked Refinement within 5.0Å range: probe atom residue distance (Å) B Occ Z:Mg602 b:29.1 occ:1.00 OG1 Z:THR190 2.3 33.6 1.0 OE1 Z:GLU215 2.3 31.9 1.0 O3B Z:ADP601 2.3 36.6 1.0 NH1 Z:ARG216 3.0 28.6 1.0 CD Z:GLU215 3.1 31.9 1.0 OE2 Z:GLU215 3.6 31.9 1.0 CB Z:THR190 3.6 33.6 1.0 OE1 Z:GLU219 3.6 32.2 1.0 O2A Z:ADP601 3.7 36.6 1.0 PB Z:ADP601 3.7 36.6 1.0 OE2 Z:GLU219 3.8 32.2 1.0 CG2 Z:THR190 4.1 33.6 1.0 CD Z:GLU219 4.1 32.2 1.0 O2B Z:ADP601 4.2 36.6 1.0 CG Z:GLU215 4.2 31.9 1.0 CZ Z:ARG216 4.2 28.6 1.0 OD2 Z:ASP285 4.5 33.9 1.0 O3A Z:ADP601 4.6 36.6 1.0 NH2 Z:ARG216 4.6 28.6 1.0 PA Z:ADP601 4.6 36.6 1.0 ND2 Z:ASN286 4.7 30.8 1.0 OD1 Z:ASP285 4.7 33.9 1.0 CA Z:THR190 4.7 33.6 1.0 O1B Z:ADP601 4.8 36.6 1.0 N Z:THR190 4.8 33.6 1.0 CG Z:ASP285 5.0 33.9 1.0

Reference: