Zinc in PDB 2erp: Crystal Structure of Vascular Apoptosis-Inducing Protein-1(Inhibitor- Bound Form)

The structure of Crystal Structure of Vascular Apoptosis-Inducing Protein-1(Inhibitor- Bound Form), PDB code: 2erp 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 / 2.95
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	86.345, 91.379, 136.039, 90.00, 90.00, 90.00
R / Rfree (%)	20.8 / 26.4

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

Cobalt	(Co)	1 atom
Calcium	(Ca)	4 atoms

The binding sites of Zinc atom in the Crystal Structure of Vascular Apoptosis-Inducing Protein-1(Inhibitor- Bound Form) (pdb code 2erp). 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(Inhibitor- Bound Form), PDB code: 2erp:
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(Inhibitor- Bound 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(Inhibitor- Bound Form) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn700 b:47.7 occ:1.00 NE2 A:HIS339 2.1 41.3 1.0 NE2 A:HIS345 2.1 51.7 1.0 NE2 A:HIS335 2.2 40.9 1.0 OAE A:GM61002 2.3 58.5 1.0 OAG A:GM61002 2.3 60.4 1.0 CAD A:GM61002 2.9 58.1 1.0 NAF A:GM61002 2.9 59.9 1.0 CD2 A:HIS345 3.0 57.1 1.0 CD2 A:HIS335 3.0 39.1 1.0 CE1 A:HIS339 3.0 40.0 1.0 CD2 A:HIS339 3.1 40.8 1.0 CE1 A:HIS345 3.1 62.1 1.0 CE1 A:HIS335 3.2 49.2 1.0 ND1 A:HIS339 4.2 34.5 1.0 CG A:HIS335 4.2 39.3 1.0 CG A:HIS345 4.2 60.7 1.0 CG A:HIS339 4.2 41.8 1.0 ND1 A:HIS345 4.2 66.6 1.0 ND1 A:HIS335 4.3 41.3 1.0 CAC A:GM61002 4.3 58.3 1.0 OE2 A:GLU336 4.4 56.0 1.0 CAA A:GM61002 4.7 50.6 1.0 CAB A:GM61002 4.8 57.9 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of Vascular Apoptosis-Inducing Protein-1(Inhibitor- Bound 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(Inhibitor- Bound Form) within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn700 b:45.1 occ:1.00 NE2 B:HIS345 2.0 58.1 1.0 NE2 B:HIS339 2.1 46.0 1.0 NE2 B:HIS335 2.2 36.6 1.0 OAG B:GM61001 2.2 65.5 1.0 OAE B:GM61001 2.3 64.4 1.0 NAF B:GM61001 2.9 67.6 1.0 CAD B:GM61001 2.9 64.8 1.0 CE1 B:HIS339 2.9 36.9 1.0 CD2 B:HIS345 3.0 56.1 1.0 CE1 B:HIS345 3.0 60.0 1.0 CD2 B:HIS335 3.1 42.2 1.0 CD2 B:HIS339 3.1 44.6 1.0 CE1 B:HIS335 3.2 44.4 1.0 ND1 B:HIS339 4.1 43.1 1.0 ND1 B:HIS345 4.1 55.9 1.0 CG B:HIS345 4.1 53.8 1.0 CG B:HIS339 4.2 40.1 1.0 CG B:HIS335 4.2 39.2 1.0 ND1 B:HIS335 4.3 43.8 1.0 CAC B:GM61001 4.4 66.0 1.0 CAA B:GM61001 4.7 49.3 1.0 OE1 B:GLU336 4.8 62.2 1.0 CAB B:GM61001 4.9 64.0 1.0 OE2 B:GLU336 5.0 51.3 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