Calcium in PDB 8tys: Adaptive Mechanism of Collagen IV Scaffold Assembly in Drosophila: Crystal Structure of Tissue-Extracted NC1 Hexamer

The structure of Adaptive Mechanism of Collagen IV Scaffold Assembly in Drosophila: Crystal Structure of Tissue-Extracted NC1 Hexamer, PDB code: 8tys was solved by S.P.Boudko, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	40.63 / 2.90
Space group	P 63
Cell size a, b, c (Å), α, β, γ (°)	145.209, 145.209, 106.491, 90, 90, 120
R / Rfree (%)	24.1 / 27.7

The structure of Adaptive Mechanism of Collagen IV Scaffold Assembly in Drosophila: Crystal Structure of Tissue-Extracted NC1 Hexamer also contains other interesting chemical elements:

Chlorine

(Cl)

4 atoms

The binding sites of Calcium atom in the Adaptive Mechanism of Collagen IV Scaffold Assembly in Drosophila: Crystal Structure of Tissue-Extracted NC1 Hexamer (pdb code 8tys). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Adaptive Mechanism of Collagen IV Scaffold Assembly in Drosophila: Crystal Structure of Tissue-Extracted NC1 Hexamer, PDB code: 8tys:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Adaptive Mechanism of Collagen IV Scaffold Assembly in Drosophila: Crystal Structure of Tissue-Extracted NC1 Hexamer


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Adaptive Mechanism of Collagen IV Scaffold Assembly in Drosophila: Crystal Structure of Tissue-Extracted NC1 Hexamer within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca302 b:62.3 occ:1.00 OD2 C:ASP40 2.4 56.3 1.0 OD1 C:ASP40 2.6 51.0 1.0 CG C:ASP40 2.8 50.7 1.0 NZ C:LYS79 3.6 55.9 1.0 OD2 E:ASP79 3.6 60.3 1.0 O C:ASN77 3.9 56.5 1.0 CB C:ASP40 4.2 44.8 1.0 CG E:ASP79 4.5 57.6 1.0 OD1 E:ASP79 4.5 64.2 1.0 CB C:ASN77 4.5 56.8 1.0 O E:ASN77 4.6 67.0 1.0 N C:ASP40 4.7 49.9 1.0 CA C:ASP40 4.7 46.4 1.0 C C:ASN77 4.8 58.9 1.0 CE C:LYS79 5.0 55.8 1.0 OG E:SER40 5.0 50.4 1.0

Calcium binding site 2 out of 2 in the Adaptive Mechanism of Collagen IV Scaffold Assembly in Drosophila: Crystal Structure of Tissue-Extracted NC1 Hexamer


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Adaptive Mechanism of Collagen IV Scaffold Assembly in Drosophila: Crystal Structure of Tissue-Extracted NC1 Hexamer within 5.0Å range: probe atom residue distance (Å) B Occ F:Ca302 b:74.4 occ:1.00 OD2 F:ASP40 2.6 60.1 1.0 OD1 F:ASP40 2.8 55.8 1.0 CG F:ASP40 3.0 55.1 1.0 OD2 B:ASP79 3.3 59.2 1.0 O F:ASN77 4.2 55.0 1.0 CG B:ASP79 4.2 56.2 1.0 OD1 B:ASP79 4.2 57.6 1.0 O B:ASN77 4.3 59.1 1.0 CB F:ASP40 4.5 48.8 1.0 CB F:ASN77 4.5 50.0 1.0 NZ F:LYS79 4.6 57.5 1.0 OG B:SER40 4.9 50.9 1.0 CG1 B:VAL151 5.0 42.5 1.0

J.A.Summers, M.Yarbrough, M.Liu, W.H.Mcdonald, B.G.Hudson, J.C.Pastor-Pareja, S.P.Boudko. Collagen IV of Basement Membranes: IV. Adaptive Mechanism of Collagen IV Scaffold Assembly in Drosophila. J.Biol.Chem. 05394 2023.
ISSN: ESSN 1083-351X
PubMed: 37890775
DOI: 10.1016/J.JBC.2023.105394