Zinc in PDB 6rti: X-Ray Structure of Human Glutamate Carboxypeptidase II (Gcpii) in Complex with Aptamer A9G

All present enzymatic activity of X-Ray Structure of Human Glutamate Carboxypeptidase II (Gcpii) in Complex with Aptamer A9G:
3.4.17.21;

The structure of X-Ray Structure of Human Glutamate Carboxypeptidase II (Gcpii) in Complex with Aptamer A9G, PDB code: 6rti was solved by L.Motlova, P.Kolenko, C.Barinka, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	105.66 / 2.20
Space group	P 41 21 2
Cell size a, b, c (Å), α, β, γ (°)	121.096, 121.096, 216.271, 90.00, 90.00, 90.00
R / Rfree (%)	19.2 / 21.7

The structure of X-Ray Structure of Human Glutamate Carboxypeptidase II (Gcpii) in Complex with Aptamer A9G also contains other interesting chemical elements:

Fluorine	(F)	22 atoms
Calcium	(Ca)	1 atom
Chlorine	(Cl)	1 atom

The binding sites of Zinc atom in the X-Ray Structure of Human Glutamate Carboxypeptidase II (Gcpii) in Complex with Aptamer A9G (pdb code 6rti). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the X-Ray Structure of Human Glutamate Carboxypeptidase II (Gcpii) in Complex with Aptamer A9G, PDB code: 6rti:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the X-Ray Structure of Human Glutamate Carboxypeptidase II (Gcpii) in Complex with Aptamer A9G


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of X-Ray Structure of Human Glutamate Carboxypeptidase II (Gcpii) in Complex with Aptamer A9G within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn901 b:34.3 occ:1.00 OD2 A:ASP387 1.9 30.4 1.0 OE2 A:GLU425 2.0 32.9 1.0 O3 A:G88905 2.0 38.2 1.0 NE2 A:HIS553 2.0 33.5 1.0 OE1 A:GLU425 2.4 34.3 1.0 CD A:GLU425 2.5 34.5 1.0 O2 A:G88905 2.7 34.9 1.0 P1 A:G88905 2.8 36.3 1.0 CG A:ASP387 2.9 32.9 1.0 CD2 A:HIS553 3.0 32.1 1.0 CE1 A:HIS553 3.0 34.3 1.0 OD1 A:ASP387 3.4 36.6 1.0 ZN A:ZN902 3.7 34.0 1.0 OH A:TYR552 3.8 34.1 1.0 CE1 A:TYR552 3.8 37.5 1.0 O1 A:G88905 3.9 35.4 1.0 O A:HOH1155 4.0 35.5 1.0 CG A:GLU425 4.0 33.2 1.0 C2 A:G88905 4.1 37.5 1.0 C1 A:G88905 4.1 36.4 1.0 ND1 A:HIS553 4.1 34.4 1.0 CG A:HIS553 4.2 34.1 1.0 CB A:ASP387 4.2 33.5 1.0 CZ A:TYR552 4.2 35.9 1.0 C3 A:G88905 4.4 36.5 1.0 O5 A:G88905 4.5 38.4 1.0 CD1 A:TRP381 4.5 35.3 1.0 OE1 A:GLU424 4.6 34.5 1.0 NE1 A:TRP381 4.6 35.1 1.0 NE2 A:HIS377 4.8 34.5 1.0 CE1 A:HIS377 4.8 36.6 1.0 CD1 A:TYR552 4.8 37.0 1.0 O A:HOH1020 5.0 39.1 1.0 CB A:GLU425 5.0 34.5 1.0 O4 A:G88905 5.0 34.9 1.0

Zinc binding site 2 out of 2 in the X-Ray Structure of Human Glutamate Carboxypeptidase II (Gcpii) in Complex with Aptamer A9G


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of X-Ray Structure of Human Glutamate Carboxypeptidase II (Gcpii) in Complex with Aptamer A9G within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn902 b:34.0 occ:1.00 OD2 A:ASP453 1.9 34.0 1.0 OD1 A:ASP387 1.9 36.6 1.0 NE2 A:HIS377 2.0 34.5 1.0 O2 A:G88905 2.4 34.9 1.0 CG A:ASP453 2.6 32.3 1.0 OD1 A:ASP453 2.7 33.4 1.0 CD2 A:HIS377 3.0 34.6 1.0 CE1 A:HIS377 3.0 36.6 1.0 CG A:ASP387 3.0 32.9 1.0 P1 A:G88905 3.3 36.3 1.0 OD2 A:ASP387 3.4 30.4 1.0 O1 A:G88905 3.5 35.4 1.0 OE1 A:GLU424 3.5 34.5 1.0 ZN A:ZN901 3.7 34.3 1.0 OE2 A:GLU425 3.7 32.9 1.0 CD A:GLU424 4.0 34.9 1.0 CB A:ASP453 4.1 31.9 1.0 ND1 A:HIS377 4.1 32.8 1.0 ND2 A:ASN519 4.1 32.6 1.0 CG A:HIS377 4.1 32.1 1.0 O3 A:G88905 4.1 38.2 1.0 OE2 A:GLU424 4.1 31.7 1.0 O A:HOH1077 4.1 47.8 1.0 CB A:PRO388 4.3 35.0 1.0 CB A:ASP387 4.3 33.5 1.0 CD A:GLU425 4.4 34.5 1.0 CA A:ASP387 4.6 35.0 1.0 CA A:PRO388 4.6 32.7 1.0 OG A:SER454 4.6 32.0 1.0 C1 A:G88905 4.6 36.4 1.0 C A:ASP387 4.7 34.9 1.0 N A:PRO388 4.7 33.2 1.0 OE1 A:GLU425 4.9 34.3 1.0

L.Motlova, P.Kolenko, C.Barinka. X-Ray Structure of Human Glutamate Carboxypeptidase II (Gcpii) in Complex with Aptamer A9G To Be Published.