Chlorine in PDB 5jyl: Human P-Cadherin MEC1 with Scfv TSP7 Bound

The structure of Human P-Cadherin MEC1 with Scfv TSP7 Bound, PDB code: 5jyl was solved by J.M.M.Caaveiro, S.Kudo, K.Tsumoto, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	109.26 / 2.55
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	66.570, 49.410, 111.660, 90.00, 101.89, 90.00
R / Rfree (%)	21.4 / 27.1

The binding sites of Chlorine atom in the Human P-Cadherin MEC1 with Scfv TSP7 Bound (pdb code 5jyl). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 2 binding sites of Chlorine where determined in the Human P-Cadherin MEC1 with Scfv TSP7 Bound, PDB code: 5jyl:
Jump to Chlorine binding site number: 1; 2;

Chlorine binding site 1 out of 2 in the Human P-Cadherin MEC1 with Scfv TSP7 Bound


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Human P-Cadherin MEC1 with Scfv TSP7 Bound within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl303 b:49.2 occ:1.00 OH B:TYR108 3.4 36.4 1.0 CE1 B:HIS193 3.6 34.9 1.0 CE2 B:TYR108 3.7 33.3 1.0 OH B:TYR101 3.8 33.2 1.0 OD1 B:ASP107 3.8 32.1 1.0 OG B:SER194 4.0 44.6 1.0 CZ B:TYR108 4.0 33.6 1.0 ND1 B:HIS193 4.2 34.5 1.0 NH1 B:ARG98 4.4 29.4 1.0 CZ B:TYR101 4.5 31.2 1.0 CG B:ASP107 4.7 32.1 1.0 NE2 B:HIS193 4.7 34.8 1.0 CE1 B:TYR101 4.7 31.7 1.0 CB B:ASP107 4.8 32.1 1.0 CD2 B:TYR108 4.9 32.4 1.0

Chlorine binding site 2 out of 2 in the Human P-Cadherin MEC1 with Scfv TSP7 Bound


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Human P-Cadherin MEC1 with Scfv TSP7 Bound within 5.0Å range: probe atom residue distance (Å) B Occ D:Cl301 b:52.8 occ:1.00 OH D:TYR108 3.7 51.5 1.0 OD2 D:ASP107 3.7 42.7 1.0 OH D:TYR101 3.7 48.7 1.0 CE2 D:TYR108 3.9 48.1 1.0 CE1 D:HIS193 4.0 53.8 1.0 NH2 D:ARG98 4.2 44.4 1.0 CZ D:TYR108 4.3 49.9 1.0 CZ D:TYR101 4.4 46.5 1.0 CE2 D:TYR101 4.4 46.5 1.0 ND1 D:HIS193 4.5 53.3 1.0 CG D:ASP107 4.7 43.0 1.0 CB D:ASP107 4.9 43.4 1.0

S.Kudo, J.M.M.Caaveiro, S.Nagatoishi, T.Miyafusa, T.Matsuura, Y.Sudou, K.Tsumoto. Disruption of Cell Adhesion By An Antibody Targeting the Cell-Adhesive Intermediate (X-Dimer) of Human P-Cadherin Sci Rep V. 7 39518 2017.
ISSN: ESSN 2045-2322
PubMed: 28045038
DOI: 10.1038/SREP39518