Zinc in PDB 8yj6: Characerization of A Novel Format Scfvxvhh Single-Chain Biparatopic Antibody Against A Metal Binding Protein, Mtsa

The structure of Characerization of A Novel Format Scfvxvhh Single-Chain Biparatopic Antibody Against A Metal Binding Protein, Mtsa, PDB code: 8yj6 was solved by S.Ito, S.Nagatoishi, M.Nakakido, K.Tsumoto, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	38.55 / 1.37
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	39.935, 49.828, 147.398, 90, 90, 90
R / Rfree (%)	17 / 19.4

The binding sites of Zinc atom in the Characerization of A Novel Format Scfvxvhh Single-Chain Biparatopic Antibody Against A Metal Binding Protein, Mtsa (pdb code 8yj6). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the Characerization of A Novel Format Scfvxvhh Single-Chain Biparatopic Antibody Against A Metal Binding Protein, Mtsa, PDB code: 8yj6:

Zinc binding site 1 out of 1 in the Characerization of A Novel Format Scfvxvhh Single-Chain Biparatopic Antibody Against A Metal Binding Protein, Mtsa


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Characerization of A Novel Format Scfvxvhh Single-Chain Biparatopic Antibody Against A Metal Binding Protein, Mtsa within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn301 b:7.5 occ:0.75 NE2 C:HIS124 2.2 6.1 1.0 NE2 C:HIS52 2.2 6.3 1.0 OD2 C:ASP265 2.2 7.4 1.0 OE1 C:GLU190 2.2 6.5 1.0 OE2 C:GLU190 2.4 7.9 1.0 OD1 C:ASP265 2.5 9.1 1.0 CD C:GLU190 2.6 6.7 1.0 CG C:ASP265 2.7 7.5 1.0 CE1 C:HIS52 3.1 7.2 1.0 CE1 C:HIS124 3.1 6.9 1.0 CD2 C:HIS124 3.2 5.7 1.0 CD2 C:HIS52 3.2 6.5 1.0 ND2 C:ASN211 4.0 8.7 1.0 CG C:GLU190 4.1 5.9 1.0 CB C:ASP265 4.2 8.2 1.0 ND1 C:HIS52 4.2 7.3 1.0 CG C:ASN211 4.2 8.8 1.0 ND1 C:HIS124 4.2 5.7 1.0 O C:HOH454 4.3 8.0 1.0 CG C:HIS52 4.3 8.5 1.0 CG C:HIS124 4.3 5.6 1.0 O C:HOH522 4.4 7.9 1.0 CB C:CYS192 4.6 8.4 1.0 OD1 C:ASN211 4.6 8.9 1.0 CD1 C:LEU77 4.7 7.0 1.0 CB C:ASN211 4.8 7.4 1.0 CB C:GLU190 4.9 6.8 1.0

R.Asano, M.Takeuchi, M.Nakakido, S.Ito, C.Aikawa, T.Yokoyama, A.Senoo, G.Ueno, S.Nagatoishi, Y.Tanaka, I.Nakagawa, K.Tsumoto. Characterization of A Novel Format Scfv×Vhh Single-Chain Biparatopic Antibody Against Metal Binding Protein Mtsa. Protein Sci. V. 33 E5017 2024.
ISSN: ESSN 1469-896X
PubMed: 38747382
DOI: 10.1002/PRO.5017