Magnesium in PDB 9ofb: Cryoem Structure of CAD1 Bound with CA4 and Atp, Symmetry Expanded Dimer Refined Against A Composite Map

Enzymatic activity of Cryoem Structure of CAD1 Bound with CA4 and Atp, Symmetry Expanded Dimer Refined Against A Composite Map

Other elements in 9ofb:

Magnesium Binding Sites:

Magnesium binding site 1 out of 4 in 9ofb

Magnesium Binding Sites List in 9ofb

Magnesium binding site 1 out of 4 in the Cryoem Structure of CAD1 Bound with CA4 and Atp, Symmetry Expanded Dimer Refined Against A Composite Map


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 CAD1 Bound with CA4 and Atp, Symmetry Expanded Dimer Refined Against A Composite Map within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg703 b:119.0 occ:1.00 O2A A:ATP701 2.0 109.1 1.0 O A:HOH806 2.5 69.0 1.0 ND2 A:ASN549 2.8 64.2 1.0 PA A:ATP701 3.0 113.9 1.0 O5' A:ATP701 3.0 109.8 1.0 C8 A:ATP701 3.5 106.5 1.0 CB A:HIS262 3.8 53.7 1.0 CG A:ASN549 3.8 61.5 1.0 N7 A:ATP701 3.9 108.3 1.0 O1A A:ATP701 3.9 108.0 1.0 N A:GLY265 4.0 59.4 1.0 OD1 A:ASN549 4.0 60.7 1.0 O2B A:ATP701 4.1 107.5 1.0 CA A:GLY265 4.1 59.5 1.0 MG A:MG704 4.1 88.7 1.0 CG A:HIS262 4.1 56.7 1.0 O3A A:ATP701 4.2 111.2 1.0 C A:GLY264 4.4 62.7 1.0 C5' A:ATP701 4.4 108.0 1.0 ND1 A:HIS262 4.5 57.2 1.0 C3' A:ATP701 4.5 109.3 1.0 N9 A:ATP701 4.7 109.7 1.0 CD1 A:ILE552 4.7 59.6 1.0 CD2 A:HIS262 4.7 55.8 1.0 O A:GLY264 4.8 68.2 1.0 PB A:ATP701 4.8 110.1 1.0 C4' A:ATP701 4.9 109.6 1.0 O4' A:ATP701 4.9 109.8 1.0 CA A:GLY264 5.0 54.0 1.0

Magnesium binding site 2 out of 4 in 9ofb

Magnesium Binding Sites List in 9ofb

Magnesium binding site 2 out of 4 in the Cryoem Structure of CAD1 Bound with CA4 and Atp, Symmetry Expanded Dimer Refined Against A Composite Map


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 CAD1 Bound with CA4 and Atp, Symmetry Expanded Dimer Refined Against A Composite Map within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg704 b:88.7 occ:1.00 O A:HOH806 2.0 69.0 1.0 O2B A:ATP701 2.0 107.5 1.0 O A:GLY264 3.1 68.2 1.0 O A:GLY314 3.2 81.3 1.0 O A:ASN317 3.3 87.9 1.0 O3G A:ATP701 3.5 112.5 1.0 PB A:ATP701 3.5 110.1 1.0 O2A A:ATP701 3.6 109.1 1.0 O A:HOH801 3.7 80.4 1.0 C A:GLY264 3.8 62.7 1.0 MG A:MG703 4.1 119.0 1.0 CA A:GLY318 4.2 84.1 1.0 C A:ASN317 4.2 81.0 1.0 C A:GLY314 4.2 81.2 1.0 O3B A:ATP701 4.3 108.5 1.0 O1B A:ATP701 4.3 109.3 1.0 O3A A:ATP701 4.4 111.2 1.0 N A:GLY265 4.4 59.4 1.0 CA A:GLY265 4.5 59.5 1.0 PG A:ATP701 4.6 118.2 1.0 CA A:GLY264 4.6 54.0 1.0 PA A:ATP701 4.6 113.9 1.0 N A:GLY318 4.6 83.5 1.0 CA A:GLY314 4.8 75.8 1.0

Magnesium binding site 3 out of 4 in 9ofb

Magnesium Binding Sites List in 9ofb

Magnesium binding site 3 out of 4 in the Cryoem Structure of CAD1 Bound with CA4 and Atp, Symmetry Expanded Dimer Refined Against A Composite Map


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 CAD1 Bound with CA4 and Atp, Symmetry Expanded Dimer Refined Against A Composite Map within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg703 b:91.1 occ:1.00 O B:GLY314 2.0 87.2 1.0 C B:GLY314 3.0 83.1 1.0 O B:GLY264 3.2 59.1 1.0 O B:ASN317 3.3 74.7 1.0 CA B:GLY314 3.5 78.3 1.0 O3G B:ATP701 3.8 107.7 1.0 CG2 B:THR268 3.9 65.4 1.0 C B:ASN317 4.0 66.9 1.0 C B:GLY264 4.2 54.9 1.0 N B:ASP315 4.2 87.5 1.0 CA B:GLY265 4.4 52.9 1.0 MG B:MG704 4.6 90.1 1.0 CD1 B:ILE552 4.6 59.7 1.0 N B:GLY314 4.6 79.2 1.0 N B:GLY265 4.7 62.9 1.0 CA B:ASP315 4.7 85.5 1.0 N B:GLY318 4.7 76.5 1.0 N B:ASN317 4.7 62.9 1.0 O3B B:ATP701 4.7 107.1 1.0 CA B:GLY318 4.8 74.5 1.0 CA B:ASN317 4.8 61.1 1.0 CB B:ASN317 4.9 65.9 1.0 O2B B:ATP701 4.9 105.4 1.0 CB B:THR268 5.0 66.1 1.0 PG B:ATP701 5.0 110.8 1.0

Magnesium binding site 4 out of 4 in 9ofb

Magnesium Binding Sites List in 9ofb

Magnesium binding site 4 out of 4 in the Cryoem Structure of CAD1 Bound with CA4 and Atp, Symmetry Expanded Dimer Refined Against A Composite Map


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 CAD1 Bound with CA4 and Atp, Symmetry Expanded Dimer Refined Against A Composite Map within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg704 b:90.1 occ:1.00 C8 B:ATP701 2.8 104.6 1.0 O2A B:ATP701 3.2 105.1 1.0 OD1 B:ASN549 3.3 76.4 1.0 O3A B:ATP701 3.4 107.0 1.0 N7 B:ATP701 3.4 100.5 1.0 C2' B:ATP701 3.6 106.7 1.0 N9 B:ATP701 3.8 107.6 1.0 PA B:ATP701 3.9 107.3 1.0 CB B:HIS262 4.0 59.6 1.0 N B:GLY265 4.1 62.9 1.0 O3B B:ATP701 4.1 107.1 1.0 O2' B:ATP701 4.2 104.3 1.0 C B:GLY264 4.3 54.9 1.0 CG B:HIS262 4.3 65.8 1.0 C1' B:ATP701 4.3 109.5 1.0 CG B:ASN549 4.3 71.8 1.0 CA B:GLY265 4.4 52.9 1.0 PB B:ATP701 4.5 112.3 1.0 CE B:MET311 4.5 93.7 1.0 ND1 B:HIS262 4.5 63.2 1.0 C5' B:ATP701 4.6 101.6 1.0 O B:GLY264 4.6 59.1 1.0 MG B:MG703 4.6 91.1 1.0 C3' B:ATP701 4.6 107.2 1.0 O5' B:ATP701 4.7 107.1 1.0 ND2 B:ASN549 4.7 72.5 1.0 C5 B:ATP701 4.7 103.8 1.0 CA B:GLY264 4.7 48.8 1.0 O4' B:ATP701 4.8 108.0 1.0 C4 B:ATP701 4.9 104.5 1.0 CD2 B:HIS262 4.9 67.7 1.0 C4' B:ATP701 4.9 106.7 1.0 O2B B:ATP701 5.0 105.4 1.0

Reference: