Zinc in PDB 1dy1: Murine Endostatin, Crystal Form III

The structure of Murine Endostatin, Crystal Form III, PDB code: 1dy1 was solved by E.Hohenester, T.Sasaki, R.Timpl, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	8.00 / 2.20
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	37.210, 52.230, 96.450, 90.00, 90.00, 90.00
R / Rfree (%)	19.5 / 27

The binding sites of Zinc atom in the Murine Endostatin, Crystal Form III (pdb code 1dy1). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Murine Endostatin, Crystal Form III, PDB code: 1dy1:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Murine Endostatin, Crystal Form III


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Murine Endostatin, Crystal Form III within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn401 b:20.0 occ:1.00 OD1 A:ASP207 1.8 9.5 1.0 NE2 A:HIS132 2.1 13.1 1.0 NE2 A:HIS142 2.2 12.1 1.0 ND1 A:HIS134 2.3 24.6 1.0 CG A:ASP207 2.6 16.4 1.0 OD2 A:ASP207 2.7 15.4 1.0 CE1 A:HIS132 3.1 13.3 1.0 CE1 A:HIS142 3.1 8.3 1.0 CD2 A:HIS132 3.1 13.4 1.0 CG A:HIS134 3.1 24.2 1.0 CE1 A:HIS134 3.2 25.2 1.0 CD2 A:HIS142 3.3 12.2 1.0 CB A:HIS134 3.4 22.9 1.0 CB A:ASP207 4.0 13.2 1.0 CA A:HIS134 4.0 25.1 1.0 ND1 A:HIS132 4.2 16.3 1.0 CD2 A:HIS134 4.2 24.4 1.0 CG A:HIS132 4.2 11.8 1.0 NE2 A:HIS134 4.2 26.1 1.0 ND1 A:HIS142 4.3 11.8 1.0 O A:LEU205 4.3 20.0 1.0 CG A:HIS142 4.4 12.2 1.0 CA A:ASP207 4.6 16.6 1.0 N A:ASP207 4.6 19.2 1.0 N A:HIS134 4.8 24.3 1.0 CG2 A:VAL203 4.9 5.3 1.0 O A:ASN204 4.9 11.6 1.0

Zinc binding site 2 out of 2 in the Murine Endostatin, Crystal Form III


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Murine Endostatin, Crystal Form III within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn402 b:27.9 occ:1.00 N A:ALA128 1.8 23.4 1.0 O A:ALA128 2.1 26.4 1.0 O A:HOH2047 2.3 27.3 1.0 C A:ALA128 2.7 26.6 1.0 O A:HOH2046 2.7 32.0 1.0 CA A:ALA128 2.8 26.4 1.0 N A:PRO129 4.0 28.2 1.0 CB A:ALA128 4.0 25.9 1.0 CD1 A:LEU130 4.3 13.6 1.0 CA A:PRO129 4.7 27.3 1.0 C A:PRO129 5.0 24.2 1.0

E.Hohenester, T.Sasaki, K.Mann, R.Timpl. Variable Zinc Coordination in Endostatin J.Mol.Biol. V. 297 1 2000.
ISSN: ISSN 0022-2836
PubMed: 10704302
DOI: 10.1006/JMBI.2000.3553