Zinc in PDB 8cn6: CD59 in Complex with Cp-06 Peptide

The structure of CD59 in Complex with Cp-06 Peptide, PDB code: 8cn6 was solved by J.Bickel, A.Ahmed, M.Morgan, S.Horrell, K.El Omari, E.C.Couves, D.Bubeck, E.Tate, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.33 / 2.43
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	30.94, 85.88, 96.57, 90, 90.03, 90
R / Rfree (%)	23.5 / 29.8

The binding sites of Zinc atom in the CD59 in Complex with Cp-06 Peptide (pdb code 8cn6). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the CD59 in Complex with Cp-06 Peptide, PDB code: 8cn6:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the CD59 in Complex with Cp-06 Peptide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of CD59 in Complex with Cp-06 Peptide within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn101 b:93.0 occ:1.00 H3 D:MET0 1.4 72.9 1.0 OE1 C:GLU56 1.7 65.2 1.0 N D:MET0 2.2 73.4 1.0 O D:MET0 2.2 93.0 1.0 CD C:GLU56 2.3 81.3 1.0 OE2 C:GLU56 2.3 80.2 1.0 NE2 C:GLN34 2.4 89.2 1.0 HE22 C:GLN34 2.5 91.0 1.0 H2 D:MET0 2.5 74.0 1.0 HE21 C:GLN34 2.6 93.8 1.0 C D:MET0 2.7 61.3 1.0 OE1 C:GLN34 2.9 75.9 1.0 H1 D:MET0 2.9 74.3 1.0 CA D:MET0 2.9 69.2 1.0 CD C:GLN34 3.0 99.0 1.0 HA D:MET0 3.4 68.4 1.0 HB3 C:ALA31 3.8 59.6 1.0 CG C:GLU56 3.8 84.7 1.0 N D:LEU1 3.8 50.7 1.0 HA C:GLU56 4.0 81.8 1.0 O C:ALA31 4.1 74.6 1.0 HB2 C:ALA31 4.1 59.7 1.0 HA D:LEU1 4.2 54.6 1.0 HG2 C:GLU56 4.2 84.2 1.0 HB2 D:MET0 4.2 72.8 1.0 CB D:MET0 4.2 69.6 1.0 HG3 C:GLU56 4.3 81.3 1.0 HB3 C:GLU56 4.3 78.9 1.0 HB2 C:GLN34 4.4 62.0 1.0 CB C:ALA31 4.4 57.6 1.0 CG C:GLN34 4.4 75.1 1.0 H C:ASN57 4.4 87.5 1.0 H D:LEU1 4.4 54.1 1.0 CB C:GLU56 4.5 79.9 1.0 HH C:TYR36 4.5 30.0 0.0 CA D:LEU1 4.6 53.4 1.0 C C:ALA31 4.7 65.9 1.0 CA C:GLU56 4.7 78.8 1.0 OH C:TYR36 4.7 71.5 1.0 HB3 D:MET0 4.7 70.6 1.0 HG2 C:GLN34 4.8 78.5 1.0 HE1 C:TYR36 4.8 61.0 1.0 CB C:GLN34 5.0 62.0 1.0 O C:ARG55 5.0 100.5 1.0 HG3 C:GLN34 5.0 77.5 1.0

Zinc binding site 2 out of 2 in the CD59 in Complex with Cp-06 Peptide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of CD59 in Complex with Cp-06 Peptide within 5.0Å range: probe atom residue distance (Å) B Occ F:Zn101 b:90.2 occ:1.00 H3 A:MET0 1.5 72.7 1.0 OE1 F:GLU56 1.8 73.2 1.0 N A:MET0 2.1 71.2 1.0 OE2 F:GLU56 2.3 80.1 1.0 CD F:GLU56 2.3 79.5 1.0 H2 A:MET0 2.3 71.5 1.0 OE1 F:GLN34 2.3 89.7 1.0 O A:MET0 2.4 83.5 1.0 HE21 F:GLN34 2.5 85.7 1.0 C A:MET0 2.5 62.8 1.0 CA A:MET0 2.6 69.7 1.0 HA A:MET0 2.8 68.3 1.0 H1 A:MET0 2.9 72.9 1.0 CD F:GLN34 3.1 98.0 1.0 NE2 F:GLN34 3.1 81.1 1.0 OD1 F:ASN57 3.3 91.8 1.0 N A:LEU1 3.6 56.6 1.0 HD21 F:ASN57 3.7 93.5 1.0 HA F:GLU56 3.7 82.9 1.0 CG F:GLU56 3.8 73.5 1.0 HE22 F:GLN34 3.9 85.3 1.0 CB A:MET0 4.1 63.8 1.0 HG2 F:GLU56 4.1 78.3 1.0 HB3 F:ALA31 4.1 67.5 1.0 H A:LEU1 4.1 58.3 1.0 H F:ASN57 4.1 75.9 1.0 HA A:LEU1 4.1 56.9 1.0 CG F:ASN57 4.2 100.3 1.0 ND2 F:ASN57 4.2 90.3 1.0 HB2 A:MET0 4.2 65.8 1.0 HG3 F:GLU56 4.3 74.6 1.0 HB3 F:GLU56 4.4 77.1 1.0 HB2 F:ALA31 4.4 67.2 1.0 O F:ALA31 4.4 52.8 1.0 CB F:GLU56 4.4 81.0 1.0 CA A:LEU1 4.5 55.5 1.0 CG F:GLN34 4.5 92.4 1.0 CA F:GLU56 4.5 81.5 1.0 HB3 A:MET0 4.6 64.5 1.0 HH F:TYR36 4.6 30.0 0.0 HB2 F:GLN34 4.6 82.2 1.0 O F:ARG55 4.7 99.1 1.0 OH F:TYR36 4.7 74.3 1.0 CB F:ALA31 4.7 68.9 1.0 HG2 F:GLN34 4.8 94.9 1.0 HE2 F:TYR36 4.9 73.2 1.0 HG3 A:MET0 5.0 73.8 1.0 N F:ASN57 5.0 75.1 1.0 CG A:MET0 5.0 69.8 1.0

A.Ahmed, J.Bickel, S.Horrell, K.El Omari, M.Morgan, E.C.Couves, D.Bubeck, E.Tate. A Novel Cyclic Peptide Ligand For CD59 To Be Published.