Calcium in PDB 1ckl: N-Terminal Two Domains of Human CD46 (Membrane Cofactor Protein, Mcp)

The structure of N-Terminal Two Domains of Human CD46 (Membrane Cofactor Protein, Mcp), PDB code: 1ckl was solved by J.Casasnovas, M.Larvie, T.Stehle, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.00 / 3.10
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	74.823, 111.204, 136.986, 90.00, 90.00, 90.00
R / Rfree (%)	24.4 / 29.8

The structure of N-Terminal Two Domains of Human CD46 (Membrane Cofactor Protein, Mcp) also contains other interesting chemical elements:

Chlorine

(Cl)

5 atoms

The binding sites of Calcium atom in the N-Terminal Two Domains of Human CD46 (Membrane Cofactor Protein, Mcp) (pdb code 1ckl). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 6 binding sites of Calcium where determined in the N-Terminal Two Domains of Human CD46 (Membrane Cofactor Protein, Mcp), PDB code: 1ckl:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6;

Calcium binding site 1 out of 6 in the N-Terminal Two Domains of Human CD46 (Membrane Cofactor Protein, Mcp)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of N-Terminal Two Domains of Human CD46 (Membrane Cofactor Protein, Mcp) within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1057 b:87.5 occ:1.00 OD1 A:ASP58 2.7 97.6 1.0 OD2 A:ASP57 2.7 96.6 1.0 OD1 A:ASP57 3.2 91.3 1.0 CG A:ASP57 3.3 95.2 1.0 CG A:ASP58 3.9 91.3 1.0 N A:ASP58 4.4 85.0 1.0 CA A:ASP58 4.5 85.2 1.0 CB A:ASP58 4.7 89.5 1.0 OD2 A:ASP58 4.7 92.4 1.0 CB A:ASP57 4.7 87.6 1.0 C A:ASP57 4.9 82.8 1.0

Calcium binding site 2 out of 6 in the N-Terminal Two Domains of Human CD46 (Membrane Cofactor Protein, Mcp)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of N-Terminal Two Domains of Human CD46 (Membrane Cofactor Protein, Mcp) within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca2057 b:68.0 occ:1.00 OD1 B:ASP58 2.8 96.0 1.0 NH1 C:ARG48 3.2 90.4 1.0 OD1 B:ASP57 3.2 92.3 1.0 CG B:ASP58 3.7 98.4 1.0 CG B:ASP57 3.7 93.1 1.0 OD2 B:ASP57 3.8 87.9 1.0 CA B:ASP58 3.9 85.9 1.0 CZ C:ARG48 4.0 96.7 1.0 N B:ASP58 4.1 86.1 1.0 OD2 B:ASP58 4.3 0.3 1.0 C B:ASP57 4.4 84.8 1.0 CB B:ASP58 4.4 89.7 1.0 O B:ASP57 4.5 80.8 1.0 NH2 C:ARG48 4.6 99.8 1.0 NE C:ARG48 4.8 90.0 1.0 CD C:ARG48 5.0 69.0 1.0 C B:ASP58 5.0 83.4 1.0

Calcium binding site 3 out of 6 in the N-Terminal Two Domains of Human CD46 (Membrane Cofactor Protein, Mcp)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of N-Terminal Two Domains of Human CD46 (Membrane Cofactor Protein, Mcp) within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca3057 b:0.5 occ:1.00 OD1 C:ASP57 2.4 77.6 1.0 OD2 C:ASP57 2.7 86.1 1.0 CG C:ASP57 2.9 89.5 1.0 OD1 C:ASP58 3.4 87.5 1.0 CG C:ASP58 4.3 82.1 1.0 CB C:ASP57 4.4 84.3 1.0 N C:ASP58 4.7 80.8 1.0 NH2 A:ARG48 4.8 87.7 1.0 OD2 C:ASP58 4.8 89.7 1.0 C C:ASP57 4.9 78.7 1.0

Calcium binding site 4 out of 6 in the N-Terminal Two Domains of Human CD46 (Membrane Cofactor Protein, Mcp)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of N-Terminal Two Domains of Human CD46 (Membrane Cofactor Protein, Mcp) within 5.0Å range: probe atom residue distance (Å) B Occ D:Ca4057 b:89.8 occ:1.00 OD1 D:ASP58 2.5 61.0 1.0 OD1 D:ASP57 2.7 76.8 1.0 OD2 D:ASP57 2.8 81.0 1.0 CG D:ASP57 3.1 67.6 1.0 CG D:ASP58 3.7 56.6 1.0 N D:ASP58 4.4 49.5 1.0 OD2 D:ASP58 4.5 52.8 1.0 CA D:ASP58 4.5 45.0 1.0 C D:ASP57 4.5 56.9 1.0 CB D:ASP57 4.5 57.5 1.0 CB D:ASP58 4.7 48.6 1.0 NH1 E:ARG48 4.7 68.6 1.0 O D:ASP57 4.9 55.1 1.0

Calcium binding site 5 out of 6 in the N-Terminal Two Domains of Human CD46 (Membrane Cofactor Protein, Mcp)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of N-Terminal Two Domains of Human CD46 (Membrane Cofactor Protein, Mcp) within 5.0Å range: probe atom residue distance (Å) B Occ E:Ca5057 b:89.6 occ:1.00 OD1 E:ASP58 3.0 78.5 1.0 OD1 E:ASP57 3.1 58.0 1.0 OD2 E:ASP57 3.3 54.2 1.0 CG E:ASP57 3.4 55.0 1.0 CG E:ASP58 3.8 75.3 1.0 CA E:ASP58 3.9 55.5 1.0 N E:ASP58 3.9 57.3 1.0 NH2 F:ARG48 3.9 64.8 1.0 C E:ASP57 4.1 52.3 1.0 O E:ASP57 4.3 49.5 1.0 CB E:ASP58 4.4 59.1 1.0 OD2 E:ASP58 4.4 79.7 1.0 CB E:ASP57 4.5 48.8 1.0 O E:CYS60 4.7 62.2 1.0 CA E:ASP57 4.9 49.1 1.0 CZ F:ARG48 4.9 54.2 1.0 CB E:ALA9 5.0 62.2 1.0

Calcium binding site 6 out of 6 in the N-Terminal Two Domains of Human CD46 (Membrane Cofactor Protein, Mcp)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of N-Terminal Two Domains of Human CD46 (Membrane Cofactor Protein, Mcp) within 5.0Å range: probe atom residue distance (Å) B Occ F:Ca6057 b:62.5 occ:1.00 OD1 F:ASP57 2.6 64.6 1.0 CG F:ASP57 3.6 74.6 1.0 OD1 F:ASP58 3.6 72.4 1.0 CA F:ASP58 3.8 50.8 1.0 CG F:ASP58 3.8 70.6 1.0 N F:ASP58 3.9 53.3 1.0 OD2 F:ASP57 4.0 80.6 1.0 NH2 D:ARG48 4.0 66.6 1.0 OD2 F:ASP58 4.2 74.1 1.0 C F:ASP57 4.2 58.8 1.0 O F:ASP57 4.4 59.6 1.0 CB F:ASP58 4.4 54.3 1.0 CB F:ASP57 4.7 65.0 1.0 O F:CYS60 4.9 62.5 1.0 C F:ASP58 4.9 44.3 1.0

J.M.Casasnovas, M.Larvie, T.Stehle. Crystal Structure of Two CD46 Domains Reveals An Extended Measles Virus-Binding Surface. Embo J. V. 18 2911 1999.
ISSN: ISSN 0261-4189
PubMed: 10357804
DOI: 10.1093/EMBOJ/18.11.2911