Magnesium in PDB 6m4i: Structure of Cenp-E Motor Domain at 1.9 Angstrom Resolution (original) (raw)
Protein crystallography data
The structure of Structure of Cenp-E Motor Domain at 1.9 Angstrom Resolution, PDB code: 6m4iwas solved by A.Shibuya, H.Yokoyama, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
| Resolution Low / High (Å) | 19.92 / 1.90 |
|---|---|
| Space group | P 1 21 1 |
| Cell size a, b, c (Å), α, β, γ (°) | 96.825, 82.839, 49.372, 90, 100.85, 90 |
| R / Rfree (%) | 21.7 / 25.5 |
Magnesium Binding Sites:
The binding sites of Magnesium atom in the Structure of Cenp-E Motor Domain at 1.9 Angstrom Resolution (pdb code 6m4i). 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 of Cenp-E Motor Domain at 1.9 Angstrom Resolution, PDB code: 6m4i:
Jump to Magnesium binding site number: 1; 2;
Magnesium binding site 1 out of 2 in 6m4i
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Magnesium Binding Sites List in 6m4i
Magnesium binding site 1 out of 2 in the Structure of Cenp-E Motor Domain at 1.9 Angstrom Resolution
Mono view
Stereo pair view
| | A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of Cenp-E Motor Domain at 1.9 Angstrom Resolution within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg601 b:45.4 occ:1.00 O2B A:ADP600 2.0 40.6 1.0 O A:HOH779 2.1 41.8 1.0 OG1 A:THR93 2.1 36.5 1.0 O A:HOH711 2.1 36.2 1.0 O A:HOH714 2.2 38.0 1.0 O A:HOH707 2.2 35.0 1.0 CB A:THR93 3.1 39.7 1.0 PB A:ADP600 3.2 37.2 1.0 O3B A:ADP600 3.4 38.7 1.0 N A:THR93 4.0 33.2 1.0 CG2 A:THR93 4.1 37.1 1.0 CA A:THR93 4.1 37.7 1.0 O2A A:ADP600 4.2 38.8 1.0 O1B A:ADP600 4.2 33.8 1.0 OD2 A:ASP235 4.2 38.6 1.0 O3A A:ADP600 4.2 40.4 1.0 O A:HOH720 4.3 40.5 1.0 OD1 A:ASP235 4.3 38.1 1.0 PA A:ADP600 4.5 41.9 1.0 O A:HOH757 4.5 36.1 1.0 CG A:ASP235 4.7 38.6 1.0 O1A A:ADP600 4.7 38.1 1.0 O A:SER200 4.8 69.2 1.0 NH1 A:ARG189 4.8 60.6 1.0 CB A:LYS92 4.8 31.6 1.0 CE A:LYS92 5.0 31.6 1.0 | | ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- |
Magnesium binding site 2 out of 2 in 6m4i
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Magnesium binding site 2 out of 2 in the Structure of Cenp-E Motor Domain at 1.9 Angstrom Resolution
Mono view
Stereo pair view
| | A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of Cenp-E Motor Domain at 1.9 Angstrom Resolution within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg601 b:51.4 occ:1.00 O B:HOH717 1.9 50.7 1.0 O B:HOH719 2.0 51.1 1.0 OG1 B:THR93 2.0 47.7 1.0 O B:HOH706 2.1 43.4 1.0 O2B B:ADP600 2.1 56.1 1.0 O B:HOH739 2.2 54.2 1.0 CB B:THR93 3.1 49.4 1.0 PB B:ADP600 3.2 53.9 1.0 O1B B:ADP600 3.4 55.2 1.0 O B:HOH713 4.0 54.6 1.0 N B:THR93 4.0 45.3 1.0 CG2 B:THR93 4.1 47.6 1.0 OD2 B:ASP235 4.1 55.6 1.0 CA B:THR93 4.1 47.5 1.0 O1A B:ADP600 4.2 53.1 1.0 O3A B:ADP600 4.2 52.2 1.0 OD1 B:ASP235 4.2 53.5 1.0 O3B B:ADP600 4.3 56.1 1.0 O B:HOH721 4.5 49.5 1.0 PA B:ADP600 4.6 54.2 1.0 CG B:ASP235 4.6 52.7 1.0 O2A B:ADP600 4.7 55.1 1.0 NH1 B:ARG189 4.8 82.0 1.0 O B:SER200 4.8 73.5 1.0 CB B:LYS92 4.9 46.8 1.0 NZ B:LYS92 5.0 45.7 1.0 | | ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- |
Reference:
A.Shibuya, N.Ogo, J.Sawada, A.Asai, H.Yokoyama. Structure and Comparison of the Motor Domain Ofcentromere-Associated Protein E Acta Crystallogr.,Sect.D V. 77 280 2021.
ISSN: ESSN 1399-0047
DOI: 10.1107/S2059798321000176
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