Calcium in PDB 8fyq: Microed Structure of Proteinase K From Argon Milled Lamellae

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

The binding sites of Calcium atom in the Microed Structure of Proteinase K From Argon Milled Lamellae (pdb code 8fyq). 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 Argon Milled Lamellae, PDB code: 8fyq:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Microed Structure of Proteinase K From Argon 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 Argon Milled Lamellae within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca403 b:6.8 occ:1.00 O A:VAL282 2.3 7.6 1.0 O A:PRO280 2.4 9.1 1.0 O A:HOH615 2.4 12.0 1.0 OD2 A:ASP305 2.4 7.9 1.0 O A:HOH564 2.5 8.1 1.0 O A:HOH697 2.5 10.7 1.0 O A:HOH531 2.6 6.4 0.9 OD1 A:ASP305 2.6 10.2 1.0 CG A:ASP305 2.9 8.7 1.0 C A:PRO280 3.5 8.6 1.0 C A:VAL282 3.6 7.5 1.0 HA A:CYS283 3.7 8.7 1.0 HA A:PRO280 3.8 10.7 1.0 HH12 A:ARG355 3.9 78.5 1.0 H A:THR284 3.9 9.3 1.0 H A:VAL282 4.1 10.0 1.0 N A:VAL282 4.1 8.3 1.0 CA A:PRO280 4.2 8.9 1.0 O A:VAL303 4.3 9.1 1.0 C A:SER281 4.4 8.2 1.0 CB A:ASP305 4.4 8.6 1.0 HA A:SER281 4.4 10.2 1.0 N A:CYS283 4.4 8.0 1.0 N A:SER281 4.4 8.6 1.0 O A:HOH749 4.4 30.1 1.0 CA A:CYS283 4.4 7.3 1.0 HH22 A:ARG355 4.5 83.3 1.0 O A:GLU279 4.5 8.4 1.0 CA A:VAL282 4.5 7.7 1.0 O A:HOH773 4.6 16.9 1.0 N A:THR284 4.6 7.7 1.0 HG21 A:VAL303 4.6 14.7 1.0 NH1 A:ARG355 4.6 65.5 1.0 CA A:SER281 4.6 8.5 1.0 O A:HOH583 4.7 13.6 1.0 HB2 A:ASP305 4.7 10.3 1.0 HB A:THR284 4.7 8.5 1.0 HB3 A:ASP305 4.7 10.3 1.0 O A:HOH596 4.7 23.6 1.0 OG1 A:THR284 4.8 7.1 1.0 HG1 A:THR284 4.8 8.5 0.0 HG23 A:VAL303 4.9 14.7 1.0 SG A:CYS354 4.9 10.1 1.0 O A:SER281 4.9 8.7 1.0

Calcium binding site 2 out of 2 in the Microed Structure of Proteinase K From Argon 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 Argon Milled Lamellae within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca404 b:17.1 occ:1.00 O A:THR121 2.3 15.9 1.0 O A:HOH673 2.3 18.6 1.0 O A:HOH655 2.3 27.7 1.0 OD1 A:ASP365 2.4 17.8 1.0 O A:HOH721 2.4 27.8 1.0 OD2 A:ASP365 2.4 19.5 1.0 O A:HOH674 2.5 27.0 1.0 CG A:ASP365 2.7 18.3 1.0 C A:THR121 3.4 14.0 1.0 HB A:THR121 3.6 19.2 1.0 HA A:SER122 3.6 18.6 1.0 HH22 A:ARG117 3.8 16.9 1.0 O A:HOH520 4.1 31.8 1.0 HB3 A:ASN362 4.2 14.0 1.0 CB A:ASP365 4.2 16.8 1.0 CA A:THR121 4.3 13.9 1.0 HA A:THR121 4.3 16.7 1.0 CB A:THR121 4.3 16.0 1.0 N A:SER122 4.4 14.2 1.0 CA A:SER122 4.4 15.5 1.0 OD1 A:ASN362 4.5 13.3 1.0 HB3 A:ASP365 4.5 20.1 1.0 NH2 A:ARG117 4.5 14.1 1.0 HB3 A:SER122 4.6 21.3 1.0 HB2 A:ASP365 4.7 20.1 1.0 HA A:ASP365 4.7 18.0 1.0 HD3 A:PRO123 4.7 18.2 1.0 HH21 A:ARG117 4.7 16.9 1.0 CG A:ASN362 4.7 12.7 1.0 CB A:ASN362 4.9 11.7 1.0 OG1 A:THR121 5.0 17.0 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