Calcium in PDB 8fys: Microed Structure of Proteinase K From Nitrogen Milled Lamellae

All present enzymatic activity of Microed Structure of Proteinase K From Nitrogen Milled Lamellae:
3.4.21.64;

The binding sites of Calcium atom in the Microed Structure of Proteinase K From Nitrogen Milled Lamellae (pdb code 8fys). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Microed Structure of Proteinase K From Nitrogen Milled Lamellae, PDB code: 8fys:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Microed Structure of Proteinase K From Nitrogen Milled Lamellae


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Microed Structure of Proteinase K From Nitrogen Milled Lamellae within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca401 b:14.7 occ:1.00 O A:PRO280 2.3 15.0 1.0 O A:VAL282 2.4 15.0 1.0 OD1 A:ASP305 2.5 13.6 1.0 O A:HOH649 2.5 10.5 1.0 O A:HOH538 2.5 14.6 1.0 O A:HOH638 2.5 24.6 1.0 OD2 A:ASP305 2.6 14.7 1.0 O A:HOH506 2.7 15.0 1.0 CG A:ASP305 2.8 13.9 1.0 C A:PRO280 3.4 14.5 1.0 C A:VAL282 3.7 14.3 1.0 HA A:CYS283 3.7 17.2 1.0 HA A:PRO280 3.8 18.7 1.0 H A:THR284 3.8 16.0 1.0 CA A:PRO280 4.2 15.6 1.0 H A:VAL282 4.2 16.7 1.0 N A:VAL282 4.2 13.9 1.0 O A:VAL303 4.2 14.5 1.0 CB A:ASP305 4.3 14.2 1.0 HA A:SER281 4.4 16.3 1.0 C A:SER281 4.4 13.6 1.0 O A:HOH699 4.4 24.6 1.0 N A:SER281 4.4 13.5 1.0 O A:GLU279 4.5 14.9 1.0 CA A:CYS283 4.5 14.3 1.0 N A:CYS283 4.5 14.6 1.0 O A:HOH682 4.5 41.4 1.0 N A:THR284 4.6 13.4 1.0 CA A:VAL282 4.6 13.8 1.0 O A:HOH568 4.6 33.5 1.0 HB2 A:ASP305 4.6 17.1 1.0 CA A:SER281 4.7 13.6 1.0 HB3 A:ASP305 4.7 17.1 1.0 HG21 A:VAL303 4.7 23.0 1.0 OG1 A:THR284 4.7 12.4 1.0 O A:HOH590 4.7 21.4 1.0 HG1 A:THR284 4.8 14.9 0.0 HB A:THR284 4.8 16.2 1.0 SG A:CYS354 4.9 16.8 1.0 O A:SER281 4.9 14.8 1.0

Calcium binding site 2 out of 2 in the Microed Structure of Proteinase K From Nitrogen Milled Lamellae


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Microed Structure of Proteinase K From Nitrogen Milled Lamellae within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca402 b:25.6 occ:1.00 O A:THR121 2.3 20.3 1.0 OD2 A:ASP365 2.3 25.2 1.0 OD1 A:ASP365 2.4 25.6 1.0 O A:HOH678 2.4 30.2 1.0 O A:HOH640 2.5 25.6 1.0 O A:HOH623 2.6 25.3 1.0 CG A:ASP365 2.7 24.7 1.0 C A:THR121 3.5 19.4 1.0 HA A:SER122 3.7 24.3 1.0 HB A:THR121 3.8 26.1 1.0 HH22 A:ARG117 3.9 20.7 1.0 HB3 A:ASN362 4.0 21.9 1.0 CB A:ASP365 4.1 23.0 1.0 HB3 A:ASP365 4.4 27.6 1.0 HA A:THR121 4.4 24.3 1.0 CA A:THR121 4.4 20.2 1.0 N A:SER122 4.4 20.2 1.0 CA A:SER122 4.5 20.3 1.0 HA A:ASP365 4.5 25.4 1.0 CB A:THR121 4.5 21.7 1.0 HB3 A:SER122 4.6 26.4 1.0 NH2 A:ARG117 4.6 17.2 1.0 HH21 A:ARG117 4.7 20.7 1.0 HB2 A:ASP365 4.7 27.6 1.0 HG1 A:THR121 4.7 27.1 0.0 OD1 A:ASN362 4.7 19.4 1.0 HD3 A:PRO123 4.8 22.8 1.0 O A:HOH509 4.8 20.8 1.0 CG A:ASN362 4.9 18.5 1.0 CA A:ASP365 4.9 21.2 1.0 CB A:ASN362 4.9 18.2 1.0

M.W.Martynowycz, A.Shiriaeva, M.T.B.Clabbers, W.J.Nicolas, S.J.Weaver, J.Hattne, T.Gonen. A Robust Approach For Microed Sample Preparation of Lipidic Cubic Phase Embedded Membrane Protein Crystals. Nat Commun V. 14 1086 2023.
ISSN: ESSN 2041-1723
PubMed: 36841804
DOI: 10.1038/S41467-023-36733-4