Atomistry » Zinc » PDB 4owp-4p9c » 4p4d
Atomistry »
  Zinc »
    PDB 4owp-4p9c »
      4p4d »

Zinc in PDB 4p4d: X-Ray Structure of Human Glutamate Carboxypeptidase II (Gcpii) in Complex with A Phosphoramidate Inhibitor MP1C

Enzymatic activity of X-Ray Structure of Human Glutamate Carboxypeptidase II (Gcpii) in Complex with A Phosphoramidate Inhibitor MP1C

All present enzymatic activity of X-Ray Structure of Human Glutamate Carboxypeptidase II (Gcpii) in Complex with A Phosphoramidate Inhibitor MP1C:
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 MP1C, PDB code: 4p4d was solved by C.Barinka, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 28.63 / 1.65
Space group I 2 2 2
Cell size a, b, c (Å), α, β, γ (°) 101.902, 130.079, 159.667, 90.00, 90.00, 90.00
R / Rfree (%) 15.7 / 17.4

Other elements in 4p4d:

The structure of X-Ray Structure of Human Glutamate Carboxypeptidase II (Gcpii) in Complex with A Phosphoramidate Inhibitor MP1C 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 MP1C (pdb code 4p4d). 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 MP1C, PDB code: 4p4d:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 4p4d

Go back to Zinc Binding Sites List in 4p4d
Zinc binding site 1 out of 2 in the X-Ray Structure of Human Glutamate Carboxypeptidase II (Gcpii) in Complex with A Phosphoramidate Inhibitor MP1C


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 MP1C within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn816

b:19.1
occ:1.00
 OE2 A:GLU425 2.0 16.8 1.0
NE2 A:HIS553 2.0 16.9 1.0
OD2 A:ASP387 2.0 19.3 1.0
OAD A:2GR820 2.1 17.4 1.0
OE1 A:GLU425 2.5 16.9 1.0
CD A:GLU425 2.6 17.3 1.0
OAG A:2GR820 2.8 17.6 1.0
CE1 A:HIS553 2.9 16.4 1.0
PAY A:2GR820 2.9 18.5 1.0
CG A:ASP387 3.0 18.9 1.0
CD2 A:HIS553 3.1 18.6 1.0
OD1 A:ASP387 3.4 17.8 1.0
ZN A:ZN817 3.6 19.0 1.0
CE1 A:TYR552 3.7 19.9 1.0
O A:HOH1030 3.9 19.2 1.0
OH A:TYR552 4.0 18.2 1.0
CA A:2GR820 4.0 16.9 1.0
N A:2GR820 4.1 16.2 1.0
ND1 A:HIS553 4.1 17.1 1.0
CG A:GLU425 4.1 17.3 1.0
OAS A:2GR820 4.1 18.3 1.0
CG A:HIS553 4.2 16.9 1.0
CB A:ASP387 4.3 18.0 1.0
CZ A:TYR552 4.3 18.7 1.0
C A:2GR820 4.4 17.6 1.0
CD1 A:TRP381 4.4 17.1 1.0
OE1 A:GLU424 4.5 17.3 1.0
O A:2GR820 4.5 17.9 1.0
NE1 A:TRP381 4.6 18.1 1.0
O A:HOH1513 4.7 33.5 1.0
NE2 A:HIS377 4.7 16.1 1.0
CD1 A:TYR552 4.7 20.2 1.0
CE1 A:HIS377 4.8 16.2 1.0

Zinc binding site 2 out of 2 in 4p4d

Go back to Zinc Binding Sites List in 4p4d
Zinc binding site 2 out of 2 in the X-Ray Structure of Human Glutamate Carboxypeptidase II (Gcpii) in Complex with A Phosphoramidate Inhibitor MP1C


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 MP1C within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn817

b:19.0
occ:1.00
 OAG A:2GR820 1.9 17.6 1.0
OD2 A:ASP453 2.0 19.1 1.0
OD1 A:ASP387 2.0 17.8 1.0
NE2 A:HIS377 2.0 16.1 1.0
CG A:ASP453 2.7 19.7 1.0
OD1 A:ASP453 2.7 19.1 1.0
CG A:ASP387 3.0 18.9 1.0
CD2 A:HIS377 3.0 16.0 1.0
CE1 A:HIS377 3.0 16.2 1.0
O A:HOH1513 3.2 33.5 1.0
PAY A:2GR820 3.3 18.5 1.0
OD2 A:ASP387 3.4 19.3 1.0
OE2 A:GLU425 3.6 16.8 1.0
ZN A:ZN816 3.6 19.1 1.0
OE1 A:GLU424 3.8 17.3 1.0
OAS A:2GR820 3.8 18.3 1.0
OAD A:2GR820 4.1 17.4 1.0
ND1 A:HIS377 4.1 16.5 1.0
CG A:HIS377 4.2 15.9 1.0
CB A:ASP453 4.2 17.6 1.0
ND2 A:ASN519 4.2 18.1 1.0
CD A:GLU424 4.2 17.2 1.0
CB A:ASP387 4.2 18.0 1.0
OE2 A:GLU424 4.3 16.3 1.0
CB A:PRO388 4.3 16.6 1.0
CD A:GLU425 4.4 17.3 1.0
N A:2GR820 4.5 16.2 1.0
CA A:ASP387 4.6 17.6 1.0
OG A:SER454 4.6 17.1 0.8
CA A:PRO388 4.6 17.3 1.0
C A:ASP387 4.7 18.1 1.0
N A:PRO388 4.7 17.6 1.0
OE1 A:GLU425 4.9 16.9 1.0

Reference:

C.Barinka, C.Barinka. N/A N/A.
Page generated: Wed Dec 16 05:40:04 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy