Zinc in PDB 2erq: Crystal Structure of Vascular Apoptosis-Inducing Protein-1(Tetragonal Crystal Form)

The structure of Crystal Structure of Vascular Apoptosis-Inducing Protein-1(Tetragonal Crystal Form), PDB code: 2erq was solved by S.Takeda, T.Igarashi, S.Araki, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 2.50
Space group	P 41 21 2
Cell size a, b, c (Å), α, β, γ (°)	93.940, 93.940, 244.820, 90.00, 90.00, 90.00
R / Rfree (%)	22.9 / 26.9

The structure of Crystal Structure of Vascular Apoptosis-Inducing Protein-1(Tetragonal Crystal Form) also contains other interesting chemical elements:

Calcium

(Ca)

4 atoms

The binding sites of Zinc atom in the Crystal Structure of Vascular Apoptosis-Inducing Protein-1(Tetragonal Crystal Form) (pdb code 2erq). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Crystal Structure of Vascular Apoptosis-Inducing Protein-1(Tetragonal Crystal Form), PDB code: 2erq:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of Vascular Apoptosis-Inducing Protein-1(Tetragonal Crystal Form)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of Vascular Apoptosis-Inducing Protein-1(Tetragonal Crystal Form) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn700 b:36.8 occ:1.00 NE2 A:HIS345 1.9 47.7 1.0 NE2 A:HIS339 2.2 33.8 1.0 NE2 A:HIS335 2.2 21.6 1.0 CE1 A:HIS345 2.7 48.4 1.0 CD2 A:HIS345 3.0 44.4 1.0 CD2 A:HIS335 3.0 22.1 1.0 CD2 A:HIS339 3.1 33.8 1.0 CE1 A:HIS339 3.2 33.2 1.0 CE1 A:HIS335 3.3 27.4 1.0 ND1 A:HIS345 3.8 40.5 1.0 O A:HOH714 3.9 43.8 1.0 CG A:HIS345 4.0 44.6 1.0 CG A:HIS335 4.2 28.6 1.0 OE1 A:GLU336 4.2 34.5 1.0 ND1 A:HIS339 4.3 36.2 1.0 CG A:HIS339 4.3 35.6 1.0 ND1 A:HIS335 4.3 25.1 1.0 OE2 A:GLU336 4.8 35.3 1.0 CD A:GLU336 4.9 35.5 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of Vascular Apoptosis-Inducing Protein-1(Tetragonal Crystal Form)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of Vascular Apoptosis-Inducing Protein-1(Tetragonal Crystal Form) within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn700 b:46.4 occ:1.00 NE2 B:HIS345 1.9 59.7 1.0 NE2 B:HIS339 2.1 34.6 1.0 NE2 B:HIS335 2.3 39.4 1.0 O B:HOH776 2.5 49.0 1.0 O B:HOH775 2.7 44.5 1.0 CE1 B:HIS345 2.9 59.1 1.0 CD2 B:HIS345 2.9 53.6 1.0 CD2 B:HIS339 3.1 39.8 1.0 CE1 B:HIS339 3.1 38.7 1.0 CD2 B:HIS335 3.1 39.7 1.0 CE1 B:HIS335 3.3 39.8 1.0 ND1 B:HIS345 4.0 55.4 1.0 CG B:HIS345 4.0 55.5 1.0 ND1 B:HIS339 4.2 36.5 1.0 CG B:HIS339 4.2 38.2 1.0 CG B:HIS335 4.3 41.2 1.0 O B:HOH740 4.3 50.0 1.0 ND1 B:HIS335 4.4 40.0 1.0 OE2 B:GLU336 4.6 46.9 1.0 OE1 B:GLU336 4.6 49.6 1.0

S.Takeda, T.Igarashi, H.Mori, S.Araki. Crystal Structures of VAP1 Reveal Adams' Mdc Domain Architecture and Its Unique C-Shaped Scaffold Embo J. V. 25 2388 2006.
ISSN: ISSN 0261-4189
PubMed: 16688218
DOI: 10.1038/SJ.EMBOJ.7601131