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Zinc in PDB 4p4j: X-Ray Structure of Human Glutamate Carboxypeptidase II (Gcpii) in Complex with A Phosphoramidate Inhibitor T33D

Enzymatic activity of X-Ray Structure of Human Glutamate Carboxypeptidase II (Gcpii) in Complex with A Phosphoramidate Inhibitor T33D

All present enzymatic activity of X-Ray Structure of Human Glutamate Carboxypeptidase II (Gcpii) in Complex with A Phosphoramidate Inhibitor T33D:
3.4.17.21;

Protein crystallography data

The structure of X-Ray Structure of Human Glutamate Carboxypeptidase II (Gcpii) in Complex with A Phosphoramidate Inhibitor T33D, PDB code: 4p4j was solved by C.Barinka, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.68 / 1.66
Space group I 2 2 2
Cell size a, b, c (Å), α, β, γ (°) 102.318, 130.025, 159.704, 90.00, 90.00, 90.00
R / Rfree (%) 15.6 / 17.9

Other elements in 4p4j:

The structure of X-Ray Structure of Human Glutamate Carboxypeptidase II (Gcpii) in Complex with A Phosphoramidate Inhibitor T33D also contains other interesting chemical elements:

Calcium (Ca) 1 atom
Chlorine (Cl) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the X-Ray Structure of Human Glutamate Carboxypeptidase II (Gcpii) in Complex with A Phosphoramidate Inhibitor T33D (pdb code 4p4j). 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 A Phosphoramidate Inhibitor T33D, PDB code: 4p4j:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 4p4j

Go back to Zinc Binding Sites List in 4p4j
Zinc binding site 1 out of 2 in the X-Ray Structure of Human Glutamate Carboxypeptidase II (Gcpii) in Complex with A Phosphoramidate Inhibitor T33D


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 A Phosphoramidate Inhibitor T33D within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn814

b:18.8
occ:1.00
 OD2 A:ASP387 2.0 18.2 1.0
OAE A:2H9818 2.0 18.0 1.0
OE2 A:GLU425 2.0 16.4 1.0
NE2 A:HIS553 2.0 16.9 1.0
OE1 A:GLU425 2.5 15.5 1.0
CD A:GLU425 2.6 18.1 1.0
OAI A:2H9818 2.8 17.4 1.0
PBB A:2H9818 2.9 18.1 1.0
CE1 A:HIS553 3.0 17.9 1.0
CG A:ASP387 3.0 18.0 1.0
CD2 A:HIS553 3.1 18.0 1.0
OD1 A:ASP387 3.4 16.9 1.0
ZN A:ZN815 3.6 18.3 1.0
CE1 A:TYR552 3.7 18.0 1.0
O A:HOH1019 3.9 20.0 1.0
OH A:TYR552 4.0 18.2 1.0
CA A:2H9818 4.0 15.9 1.0
N A:2H9818 4.1 15.7 1.0
OAT A:2H9818 4.1 17.7 1.0
ND1 A:HIS553 4.1 18.1 1.0
CG A:GLU425 4.1 15.6 1.0
CG A:HIS553 4.2 17.2 1.0
CZ A:TYR552 4.3 18.4 1.0
CB A:ASP387 4.3 17.3 1.0
C A:2H9818 4.4 17.1 1.0
CD1 A:TRP381 4.4 17.1 1.0
OE1 A:GLU424 4.5 15.9 1.0
O A:2H9818 4.6 17.4 1.0
NE1 A:TRP381 4.6 18.1 1.0
CD1 A:TYR552 4.7 17.8 1.0
NE2 A:HIS377 4.7 16.1 1.0
CE1 A:HIS377 4.8 16.6 1.0
CAQ A:2H9818 5.0 18.4 1.0

Zinc binding site 2 out of 2 in 4p4j

Go back to Zinc Binding Sites List in 4p4j
Zinc binding site 2 out of 2 in the X-Ray Structure of Human Glutamate Carboxypeptidase II (Gcpii) in Complex with A Phosphoramidate Inhibitor T33D


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 A Phosphoramidate Inhibitor T33D within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn815

b:18.3
occ:1.00
 OD2 A:ASP453 1.9 17.7 1.0
OAI A:2H9818 1.9 17.4 1.0
OD1 A:ASP387 2.0 16.9 1.0
NE2 A:HIS377 2.0 16.1 1.0
CG A:ASP453 2.7 19.0 1.0
OD1 A:ASP453 2.8 18.9 1.0
CG A:ASP387 3.0 18.0 1.0
CE1 A:HIS377 3.0 16.6 1.0
CD2 A:HIS377 3.0 15.3 1.0
PBB A:2H9818 3.3 18.1 1.0
OD2 A:ASP387 3.4 18.2 1.0
OE2 A:GLU425 3.6 16.4 1.0
ZN A:ZN814 3.6 18.8 1.0
OAT A:2H9818 3.8 17.7 1.0
OE1 A:GLU424 3.8 15.9 1.0
OAE A:2H9818 4.1 18.0 1.0
ND1 A:HIS377 4.1 16.2 1.0
ND2 A:ASN519 4.1 17.4 1.0
CG A:HIS377 4.2 16.1 1.0
CD A:GLU424 4.2 15.3 1.0
CB A:ASP453 4.2 16.8 1.0
CB A:ASP387 4.2 17.3 1.0
OE2 A:GLU424 4.3 16.3 1.0
CB A:PRO388 4.4 15.9 1.0
CD A:GLU425 4.4 18.1 1.0
N A:2H9818 4.5 15.7 1.0
CA A:ASP387 4.6 17.4 1.0
CA A:PRO388 4.6 16.7 1.0
C A:ASP387 4.7 17.2 1.0
N A:PRO388 4.7 17.2 1.0
O A:HOH1483 4.7 32.6 1.0
OG A:SER454 4.7 16.1 0.8
OAC A:2H9818 4.8 21.3 1.0
OE1 A:GLU425 4.9 15.5 1.0

Reference:

C.Barinka, C.Barinka. N/A N/A.
Page generated: Wed Dec 16 05:40:07 2020

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