Calcium in PDB 6oly: Full-Length Mthk Channel at 3.1 Angstrom Resolution

The structure of Full-Length Mthk Channel at 3.1 Angstrom Resolution, PDB code: 6oly was solved by B.S.Rothberg, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	39.70 / 3.11
Space group	P 61 2 2
Cell size a, b, c (Å), α, β, γ (°)	137.456, 137.456, 373.026, 90.00, 90.00, 120.00
R / Rfree (%)	23.6 / 27.5

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 12;

Binding sites:

The binding sites of Calcium atom in the Full-Length Mthk Channel at 3.1 Angstrom Resolution (pdb code 6oly). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 12 binding sites of Calcium where determined in the Full-Length Mthk Channel at 3.1 Angstrom Resolution, PDB code: 6oly:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Calcium binding site 1 out of 12 in the Full-Length Mthk Channel at 3.1 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Full-Length Mthk Channel at 3.1 Angstrom Resolution within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca401 b:79.8 occ:1.00 O A:ARG241 2.4 71.2 1.0 O A:ASP245 2.6 99.9 1.0 OE1 A:GLU248 2.7 57.4 1.0 OE2 A:GLU248 2.8 0.9 1.0 CD A:GLU248 3.1 0.3 1.0 N A:ASP245 3.1 65.6 1.0 C A:ARG241 3.4 87.8 1.0 C A:ASP245 3.5 84.4 1.0 CB A:ASP244 3.5 0.8 1.0 CA A:ASP245 3.8 74.2 1.0 CA A:ARG241 4.0 63.3 1.0 C A:ASP244 4.1 73.9 1.0 CA A:ASP244 4.2 89.0 1.0 CB A:ASP245 4.2 91.7 1.0 CB A:ARG241 4.2 57.5 1.0 N A:ASP244 4.3 95.6 1.0 N A:SER242 4.6 91.5 1.0 CG A:GLU248 4.6 86.0 1.0 CG A:ASP244 4.6 0.3 1.0 OD2 A:ASP244 4.7 0.9 1.0 N A:GLY246 4.8 77.6 1.0 CA A:SER242 4.9 79.4 1.0 CG A:ARG241 4.9 80.3 1.0

Calcium binding site 2 out of 12 in the Full-Length Mthk Channel at 3.1 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Full-Length Mthk Channel at 3.1 Angstrom Resolution within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca402 b:0.0 occ:1.00 OE2 A:GLU210 2.3 80.8 1.0 OD1 A:ASP184 2.5 99.6 1.0 OE1 A:GLU212 2.9 91.8 1.0 OD2 A:ASP184 2.9 0.7 1.0 CG A:ASP184 3.1 96.7 1.0 OE2 A:GLU212 3.3 98.1 1.0 CD A:GLU212 3.5 0.8 1.0 CD A:GLU210 3.5 0.1 1.0 CB A:SER124 4.0 76.3 1.0 OG A:SER124 4.2 77.8 1.0 OE1 A:GLU210 4.3 96.9 1.0 CG A:GLU210 4.4 0.7 1.0 OG A:SER126 4.5 78.7 1.0 O A:HOH502 4.6 66.0 1.0 O A:LEU185 4.6 81.4 1.0 CB A:ASP184 4.6 68.2 1.0 CG A:GLU212 5.0 97.2 1.0

Calcium binding site 3 out of 12 in the Full-Length Mthk Channel at 3.1 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Full-Length Mthk Channel at 3.1 Angstrom Resolution within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca403 b:0.2 occ:1.00 OD2 A:ASP305 2.5 92.9 1.0 OD1 A:ASP305 2.9 0.4 1.0 CG A:ASP305 3.1 0.3 1.0 CB A:ASP305 4.6 0.6 1.0 O A:PRO306 4.8 0.8 1.0 O A:ASP305 4.9 95.0 1.0

Calcium binding site 4 out of 12 in the Full-Length Mthk Channel at 3.1 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Full-Length Mthk Channel at 3.1 Angstrom Resolution within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca401 b:98.4 occ:1.00 OE2 B:GLU248 2.3 89.8 1.0 O B:ARG241 2.4 0.8 1.0 O B:ASP245 2.6 86.3 1.0 OE1 B:GLU248 2.9 82.0 1.0 CD B:GLU248 3.0 90.1 1.0 N B:ASP245 3.4 95.2 1.0 C B:ARG241 3.5 91.8 1.0 C B:ASP245 3.6 89.4 1.0 CB B:ASP244 4.0 0.1 1.0 CA B:ASP245 4.0 95.3 1.0 CA B:ARG241 4.2 84.7 1.0 CB B:ASP245 4.4 0.8 1.0 C B:ASP244 4.4 0.2 1.0 CG B:GLU248 4.5 76.7 1.0 N B:ASP244 4.5 0.8 1.0 CB B:ARG241 4.5 91.6 1.0 CA B:ASP244 4.5 0.2 1.0 N B:SER242 4.6 76.5 1.0 N B:GLY246 4.8 88.7 1.0 CA B:SER242 4.8 79.0 1.0

Calcium binding site 5 out of 12 in the Full-Length Mthk Channel at 3.1 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Full-Length Mthk Channel at 3.1 Angstrom Resolution within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca402 b:87.2 occ:1.00 OE2 B:GLU210 2.3 0.7 1.0 OE1 B:GLU212 2.4 67.2 1.0 OD1 B:ASP184 2.5 68.6 1.0 OD2 B:ASP184 2.9 74.2 1.0 CG B:ASP184 3.1 68.5 1.0 CD B:GLU210 3.5 81.4 1.0 CD B:GLU212 3.6 0.8 1.0 OG B:SER124 3.8 75.4 1.0 CB B:SER124 3.9 86.4 1.0 O B:HOH501 3.9 43.6 1.0 OE2 B:GLU212 4.2 0.8 1.0 OG B:SER126 4.2 83.2 1.0 OE1 B:GLU210 4.3 87.4 1.0 CG B:GLU210 4.5 62.9 1.0 CB B:ASP184 4.6 60.4 1.0 O B:LEU185 4.7 86.8 1.0 CG B:GLU212 4.7 0.4 1.0

Calcium binding site 6 out of 12 in the Full-Length Mthk Channel at 3.1 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Full-Length Mthk Channel at 3.1 Angstrom Resolution within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca403 b:84.0 occ:1.00 OD2 B:ASP305 2.5 0.5 1.0 OD1 B:ASP305 3.0 0.5 1.0 CG B:ASP305 3.0 0.5 1.0 O B:ASP305 4.1 0.4 1.0 O B:PRO306 4.3 0.1 1.0 CB B:ASP305 4.5 0.1 1.0 C B:ASP305 4.9 0.1 1.0

Calcium binding site 7 out of 12 in the Full-Length Mthk Channel at 3.1 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of Full-Length Mthk Channel at 3.1 Angstrom Resolution within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca401 b:84.8 occ:1.00 O C:ARG241 2.4 0.2 1.0 O C:ASP245 2.4 0.7 1.0 OE1 C:GLU248 2.8 0.4 1.0 O C:HOH505 2.8 59.1 1.0 OE2 C:GLU248 3.1 0.9 1.0 N C:ASP245 3.1 0.1 1.0 CD C:GLU248 3.3 0.7 1.0 C C:ASP245 3.4 0.5 1.0 C C:ARG241 3.6 99.4 1.0 CB C:ASP244 3.6 0.3 1.0 CA C:ASP245 3.8 0.3 1.0 C C:ASP244 4.1 0.9 1.0 N C:ASP244 4.2 0.1 1.0 CA C:ASP244 4.2 0.4 1.0 CB C:ASP245 4.4 0.2 1.0 N C:SER242 4.5 90.3 1.0 CA C:SER242 4.5 97.7 1.0 CA C:ARG241 4.5 94.8 1.0 N C:GLY246 4.7 0.5 1.0 CG C:ASP244 4.7 0.7 1.0 OD2 C:ASP244 4.7 0.3 1.0 C C:SER242 4.7 90.3 1.0 CG C:GLU248 4.8 0.2 1.0 CB C:ARG241 4.9 93.0 1.0 N C:ILE243 5.0 88.2 1.0

Calcium binding site 8 out of 12 in the Full-Length Mthk Channel at 3.1 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 8 of Full-Length Mthk Channel at 3.1 Angstrom Resolution within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca402 b:72.2 occ:1.00 OE2 C:GLU210 2.4 0.9 1.0 OE1 C:GLU212 2.4 83.9 1.0 OD1 C:ASP184 2.5 64.6 1.0 OD2 C:ASP184 3.1 51.8 1.0 CG C:ASP184 3.1 64.1 1.0 CD C:GLU212 3.6 85.8 1.0 CD C:GLU210 3.6 0.7 1.0 CB C:SER124 3.8 79.8 1.0 OG C:SER124 3.9 60.2 1.0 OG C:SER126 4.1 72.1 1.0 OE1 C:GLU210 4.2 98.7 1.0 CG C:GLU212 4.4 69.5 1.0 OE2 C:GLU212 4.4 0.4 1.0 CG C:GLU210 4.6 67.2 1.0 CB C:ASP184 4.6 53.3 1.0 O C:LEU185 5.0 91.0 1.0

Calcium binding site 9 out of 12 in the Full-Length Mthk Channel at 3.1 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 9 of Full-Length Mthk Channel at 3.1 Angstrom Resolution within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca403 b:0.8 occ:1.00 OD1 C:ASP305 2.6 0.4 1.0 OD2 C:ASP305 2.7 0.2 1.0 CG C:ASP305 3.0 1.0 1.0 CB C:ASP305 4.5 0.4 1.0 O C:PRO306 4.6 0.2 1.0 O C:ASP305 4.7 0.3 1.0

Calcium binding site 10 out of 12 in the Full-Length Mthk Channel at 3.1 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 10 of Full-Length Mthk Channel at 3.1 Angstrom Resolution within 5.0Å range: probe atom residue distance (Å) B Occ D:Ca401 b:82.4 occ:1.00 OE2 D:GLU248 2.4 0.6 1.0 O D:ARG241 2.5 81.0 1.0 O D:ASP245 2.8 0.9 1.0 CD D:GLU248 3.1 98.9 1.0 OE1 D:GLU248 3.1 78.0 1.0 N D:ASP245 3.2 0.1 1.0 C D:ARG241 3.6 86.4 1.0 C D:ASP245 3.7 0.6 1.0 CB D:ASP244 3.8 0.8 1.0 CA D:ASP245 3.8 0.4 1.0 CB D:ASP245 4.0 0.9 1.0 C D:ASP244 4.2 0.6 1.0 CA D:ARG241 4.3 87.3 1.0 CA D:ASP244 4.3 0.4 1.0 N D:ASP244 4.4 0.7 1.0 CG D:GLU248 4.6 89.9 1.0 CB D:ARG241 4.6 87.5 1.0 N D:SER242 4.7 93.2 1.0 CA D:SER242 4.9 96.6 1.0 N D:GLY246 4.9 96.0 1.0

W.Kopec, B.S.Rothberg, B.L.De Groot. Molecular Mechanism of A Potassium Channel Gating Through Activation Gate-Selectivity Filter Coupling. Nat Commun V. 10 5366 2019.
ISSN: ESSN 2041-1723
PubMed: 31772184
DOI: 10.1038/S41467-019-13227-W