Calcium in PDB 8fyo: Microed Structure of Proteinase K From Lamellae Milled From Multiple Plasma Sources

All present enzymatic activity of Microed Structure of Proteinase K From Lamellae Milled From Multiple Plasma Sources:
3.4.21.64;

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

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


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 Lamellae Milled From Multiple Plasma Sources within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca402 b:16.2 occ:1.00 O A:THR121 2.3 14.7 1.0 O A:HOH652 2.3 28.2 1.0 O A:HOH673 2.3 19.4 1.0 O A:HOH712 2.4 27.5 1.0 OD1 A:ASP365 2.4 19.5 1.0 OD2 A:ASP365 2.5 18.1 1.0 O A:HOH678 2.5 33.0 1.0 CG A:ASP365 2.8 18.4 1.0 C A:THR121 3.5 12.3 1.0 HB A:THR121 3.6 18.5 1.0 HA A:SER122 3.6 16.7 0.8 HH22 A:ARG117 3.8 15.2 1.0 O A:HOH709 4.1 36.4 1.0 HB3 A:ASN362 4.2 12.7 0.9 CB A:ASP365 4.2 15.8 1.0 O A:HOH575 4.3 27.4 1.0 HA A:THR121 4.3 15.3 0.8 CB A:THR121 4.3 15.7 1.0 CA A:THR121 4.3 12.8 1.0 N A:SER122 4.4 12.7 1.0 CA A:SER122 4.4 14.1 1.0 OD1 A:ASN362 4.4 12.2 1.0 HB3 A:ASP365 4.5 19.2 0.9 HB3 A:SER122 4.6 19.2 1.0 NH2 A:ARG117 4.6 12.8 1.0 HA A:ASP365 4.7 16.6 0.9 HB2 A:ASP365 4.7 19.2 0.6 CG A:ASN362 4.7 11.1 1.0 HD3 A:PRO123 4.8 16.8 0.7 HH21 A:ARG117 4.8 15.2 1.0 OG1 A:THR121 4.9 16.9 1.0 CB A:ASN362 4.9 10.7 1.0

Calcium binding site 2 out of 2 in the Microed Structure of Proteinase K From Lamellae Milled From Multiple Plasma Sources


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 Lamellae Milled From Multiple Plasma Sources within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca403 b:6.7 occ:1.00 O A:PRO280 2.3 7.8 1.0 O A:VAL282 2.4 6.3 1.0 OD2 A:ASP305 2.4 6.7 1.0 O A:HOH676 2.5 10.3 1.0 O A:HOH597 2.5 5.9 1.0 O A:HOH632 2.5 8.9 0.9 O A:HOH542 2.5 8.0 1.0 OD1 A:ASP305 2.6 9.1 1.0 CG A:ASP305 2.9 8.0 1.0 C A:PRO280 3.5 7.9 1.0 C A:VAL282 3.6 6.0 1.0 HA A:CYS283 3.7 7.7 1.0 HA A:PRO280 3.8 10.6 1.0 H A:THR284 3.9 8.2 0.9 H A:VAL282 4.1 8.1 1.0 N A:VAL282 4.2 6.9 1.0 HH12 A:ARG355 4.2 56.1 0.6 CA A:PRO280 4.2 9.2 1.0 O A:VAL303 4.3 8.4 1.0 HH22 A:ARG355 4.4 46.7 0.6 CB A:ASP305 4.4 8.1 1.0 C A:SER281 4.4 7.4 1.0 HA A:SER281 4.4 9.9 1.0 CA A:CYS283 4.4 6.6 1.0 N A:SER281 4.5 8.3 1.0 N A:CYS283 4.5 7.0 1.0 O A:HOH745 4.5 15.3 0.6 O A:GLU279 4.5 7.6 1.0 O A:HOH755 4.5 17.9 1.0 CA A:VAL282 4.6 6.4 1.0 N A:THR284 4.6 6.8 1.0 HG21 A:VAL303 4.6 12.8 0.1 CA A:SER281 4.7 8.4 1.0 O A:HOH603 4.7 11.8 1.0 HB A:THR284 4.7 7.4 1.0 HB2 A:ASP305 4.7 9.6 1.0 O A:HOH626 4.7 17.2 0.8 HB3 A:ASP305 4.8 9.6 1.0 O A:HOH742 4.8 42.7 1.0 NH1 A:ARG355 4.8 48.1 0.6 OG1 A:THR284 4.8 5.2 1.0 SG A:CYS354 4.9 9.8 1.0 HG1 A:THR284 4.9 6.5 0.0 HG23 A:VAL303 4.9 12.8 0.0 O A:SER281 5.0 8.1 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