Calcium in PDB 5mkf: Cryoem Structure of Polycystin-2 in Complex with Calcium and Lipids

The binding sites of Calcium atom in the Cryoem Structure of Polycystin-2 in Complex with Calcium and Lipids (pdb code 5mkf). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 5 binding sites of Calcium where determined in the Cryoem Structure of Polycystin-2 in Complex with Calcium and Lipids, PDB code: 5mkf:
Jump to Calcium binding site number: 1; 2; 3; 4; 5;

Calcium binding site 1 out of 5 in the Cryoem Structure of Polycystin-2 in Complex with Calcium and Lipids


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Cryoem Structure of Polycystin-2 in Complex with Calcium and Lipids within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1012 b:30.0 occ:1.00 OD1 B:ASN681 2.5 30.0 1.0 OD1 D:ASN681 2.5 30.0 1.0 OD1 C:ASN681 2.6 30.0 1.0 OD1 A:ASN681 2.6 30.0 1.0 CG B:ASN681 3.7 30.0 1.0 CG D:ASN681 3.7 30.0 1.0 CG C:ASN681 3.8 30.0 1.0 CG A:ASN681 3.8 30.0 1.0 ND2 B:ASN681 4.4 30.0 1.0 ND2 D:ASN681 4.4 30.0 1.0 ND2 C:ASN681 4.4 30.0 1.0 ND2 A:ASN681 4.5 30.0 1.0 CB D:ASN681 4.9 30.0 1.0 CB B:ASN681 4.9 30.0 1.0 CB C:ASN681 4.9 30.0 1.0 CB A:ASN681 4.9 30.0 1.0

Calcium binding site 2 out of 5 in the Cryoem Structure of Polycystin-2 in Complex with Calcium and Lipids


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Cryoem Structure of Polycystin-2 in Complex with Calcium and Lipids within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1013 b:30.0 occ:1.00 OD1 B:ASP643 4.3 30.0 1.0 OD1 A:ASP643 4.4 30.0 1.0 OD1 C:ASP643 4.4 30.0 1.0 OD1 D:ASP643 4.4 30.0 1.0

Calcium binding site 3 out of 5 in the Cryoem Structure of Polycystin-2 in Complex with Calcium and Lipids


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Cryoem Structure of Polycystin-2 in Complex with Calcium and Lipids within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1014 b:30.0 occ:1.00 CA B:CA1012 4.3 30.0 1.0 CZ C:PHE669 4.3 30.0 1.0 CZ D:PHE669 4.3 30.0 1.0 CZ A:PHE669 4.3 30.0 1.0 CZ B:PHE669 4.3 30.0 1.0 CA A:CA1015 4.6 30.0 1.0 CE1 C:PHE669 4.7 30.0 1.0 CE1 D:PHE669 4.7 30.0 1.0 CE1 B:PHE669 4.7 30.0 1.0 CE1 A:PHE669 4.7 30.0 1.0

Calcium binding site 4 out of 5 in the Cryoem Structure of Polycystin-2 in Complex with Calcium and Lipids


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Cryoem Structure of Polycystin-2 in Complex with Calcium and Lipids within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1015 b:30.0 occ:1.00 CA A:CA1014 4.6 30.0 1.0 CD2 B:LEU673 4.7 30.0 1.0 CD2 A:LEU673 4.7 30.0 1.0 CD2 C:LEU673 4.7 30.0 1.0 CD2 D:LEU673 4.7 30.0 1.0

Calcium binding site 5 out of 5 in the Cryoem Structure of Polycystin-2 in Complex with Calcium and Lipids


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Cryoem Structure of Polycystin-2 in Complex with Calcium and Lipids within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca1012 b:30.0 occ:1.00 O B:LEU641 3.5 1.0 1.0 O C:LEU641 3.5 1.0 1.0 O D:LEU641 3.5 1.0 1.0 O A:LEU641 3.5 1.0 1.0 CA A:CA1014 4.3 30.0 1.0 C B:LEU641 4.6 1.0 1.0 C C:LEU641 4.6 1.0 1.0 C D:LEU641 4.6 1.0 1.0 C A:LEU641 4.6 1.0 1.0

M.Wilkes, M.G.Madej, L.Kreuter, D.Rhinow, V.Heinz, S.De Sanctis, S.Ruppel, R.M.Richter, F.Joos, M.Grieben, A.C.Pike, J.T.Huiskonen, E.P.Carpenter, W.Kuhlbrandt, R.Witzgall, C.Ziegler. Molecular Insights Into Lipid-Assisted Ca(2+) Regulation of the Trp Channel Polycystin-2. Nat. Struct. Mol. Biol. V. 24 123 2017.
ISSN: ESSN 1545-9985
PubMed: 28092368
DOI: 10.1038/NSMB.3357