Zinc in PDB 2g54: Crystal Structure of Zn-Bound Human Insulin-Degrading Enzyme in Complex with Insulin B Chain

All present enzymatic activity of Crystal Structure of Zn-Bound Human Insulin-Degrading Enzyme in Complex with Insulin B Chain:
3.4.24.56;

The structure of Crystal Structure of Zn-Bound Human Insulin-Degrading Enzyme in Complex with Insulin B Chain, PDB code: 2g54 was solved by Y.Shen, W.-J.Tang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	28.03 / 2.25
Space group	P 65
Cell size a, b, c (Å), α, β, γ (°)	262.528, 262.528, 90.503, 90.00, 90.00, 120.00
R / Rfree (%)	20.6 / 23.3

The binding sites of Zinc atom in the Crystal Structure of Zn-Bound Human Insulin-Degrading Enzyme in Complex with Insulin B Chain (pdb code 2g54). 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 Zn-Bound Human Insulin-Degrading Enzyme in Complex with Insulin B Chain, PDB code: 2g54:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of Zn-Bound Human Insulin-Degrading Enzyme in Complex with Insulin B Chain


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 Zn-Bound Human Insulin-Degrading Enzyme in Complex with Insulin B Chain within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1100 b:36.4 occ:1.00 OE2 A:GLU189 2.0 30.0 1.0 NE2 A:HIS108 2.0 27.6 1.0 NE2 A:HIS112 2.0 30.4 1.0 CE1 A:HIS108 2.7 26.2 1.0 CD A:GLU189 2.7 32.0 1.0 O C:TYR16 2.8 62.1 1.0 OE1 A:GLU189 2.8 34.0 1.0 CE1 A:HIS112 3.0 31.1 1.0 CD2 A:HIS112 3.1 28.3 1.0 C C:TYR16 3.1 62.2 1.0 CD2 A:HIS108 3.2 28.3 1.0 N C:LEU17 3.7 62.2 1.0 N C:TYR16 3.8 62.4 1.0 CA C:TYR16 3.9 62.4 1.0 ND1 A:HIS108 3.9 28.2 1.0 CA C:LEU17 4.0 62.3 1.0 ND1 A:HIS112 4.1 29.8 1.0 CG A:HIS108 4.2 27.5 1.0 CG A:GLU189 4.2 30.0 1.0 CG A:HIS112 4.2 29.2 1.0 C C:LEU15 4.2 62.1 1.0 OE1 A:GLN111 4.4 36.4 1.0 CB C:LEU15 4.4 61.8 1.0 O C:LEU15 4.5 61.6 1.0 CE1 A:TYR831 4.6 34.0 1.0 C C:LEU17 4.7 63.6 1.0 CB A:GLU189 4.7 28.2 1.0 NE2 A:GLN111 4.8 32.8 1.0 CA C:LEU15 4.8 62.1 1.0 OH A:TYR831 4.9 34.4 1.0 CD A:GLN111 4.9 33.2 1.0 O C:LEU17 5.0 63.9 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of Zn-Bound Human Insulin-Degrading Enzyme in Complex with Insulin B Chain


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 Zn-Bound Human Insulin-Degrading Enzyme in Complex with Insulin B Chain within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1200 b:43.7 occ:1.00 NE2 B:HIS108 1.9 34.0 1.0 O D:TYR16 2.1 63.9 1.0 OE2 B:GLU189 2.1 37.9 1.0 NE2 B:HIS112 2.1 32.1 1.0 CE1 B:HIS108 2.6 33.2 1.0 CD B:GLU189 2.9 38.8 1.0 OE1 B:GLU189 2.9 39.5 1.0 CD2 B:HIS112 3.0 33.2 1.0 CD2 B:HIS108 3.1 31.1 1.0 CE1 B:HIS112 3.2 34.4 1.0 C D:TYR16 3.3 64.9 1.0 ND1 B:HIS108 3.8 31.7 1.0 N D:LEU17 4.0 64.5 1.0 CG B:HIS108 4.1 32.1 1.0 CA D:LEU17 4.2 64.3 1.0 CG B:HIS112 4.2 33.0 1.0 NE2 B:GLN111 4.2 37.1 1.0 ND1 B:HIS112 4.3 32.5 1.0 O D:LEU15 4.3 65.2 1.0 CG B:GLU189 4.3 36.5 1.0 N D:TYR16 4.4 65.4 1.0 CA D:TYR16 4.4 65.2 1.0 C D:LEU15 4.4 65.5 1.0 CB D:LEU15 4.5 64.4 1.0 CE1 B:TYR831 4.6 42.0 1.0 CB B:GLU189 4.8 34.1 1.0 C D:LEU17 4.8 64.6 1.0 OE1 B:GLN111 4.9 36.6 1.0 CD B:GLN111 4.9 34.5 1.0 OH B:TYR831 5.0 44.6 1.0

Y.Shen, A.Joachimiak, M.R.Rosner, W.J.Tang. Structures of Human Insulin-Degrading Enzyme Reveal A New Substrate Recognition Mechanism. Nature V. 443 870 2006.
ISSN: ISSN 0028-0836
PubMed: 17051221
DOI: 10.1038/NATURE05143