Zinc in PDB 7bfz: X-Ray Structure of Human Prostate-Specific Membrane Antigen(Psma) in Complex with A Inhibitor Glu-490

Enzymatic activity of X-Ray Structure of Human Prostate-Specific Membrane Antigen(Psma) in Complex with A Inhibitor Glu-490

All present enzymatic activity of X-Ray Structure of Human Prostate-Specific Membrane Antigen(Psma) in Complex with A Inhibitor Glu-490:
3.4.17.21;

Protein crystallography data

The structure of X-Ray Structure of Human Prostate-Specific Membrane Antigen(Psma) in Complex with A Inhibitor Glu-490, PDB code: 7bfz was solved by A.Rakhimbekova, L.Motlova, C.Barinka, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 46.96 / 1.73
Space group I 2 2 2
Cell size a, b, c (Å), α, β, γ (°) 101.54, 130.103, 158.91, 90, 90, 90
R / Rfree (%) 16.3 / 18.3

Other elements in 7bfz:

The structure of X-Ray Structure of Human Prostate-Specific Membrane Antigen(Psma) in Complex with A Inhibitor Glu-490 also contains other interesting chemical elements:

Sodium (Na) 2 atoms
Chlorine (Cl) 1 atom
Calcium (Ca) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the X-Ray Structure of Human Prostate-Specific Membrane Antigen(Psma) in Complex with A Inhibitor Glu-490 (pdb code 7bfz). 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 Prostate-Specific Membrane Antigen(Psma) in Complex with A Inhibitor Glu-490, PDB code: 7bfz:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 7bfz

Go back to Zinc Binding Sites List in 7bfz
Zinc binding site 1 out of 2 in the X-Ray Structure of Human Prostate-Specific Membrane Antigen(Psma) in Complex with A Inhibitor Glu-490


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 Prostate-Specific Membrane Antigen(Psma) in Complex with A Inhibitor Glu-490 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn801

b:25.7
occ:1.00
O A:HOH1202 2.0 24.0 1.0
OD2 A:ASP387 2.0 26.6 1.0
NE2 A:HIS553 2.0 24.6 1.0
OE2 A:GLU425 2.1 24.1 1.0
OE1 A:GLU425 2.4 24.9 1.0
O6 A:TKZ813 2.5 25.5 1.0
CD A:GLU425 2.6 25.1 1.0
CE1 A:HIS553 2.9 24.3 1.0
CG A:ASP387 3.0 26.6 1.0
CD2 A:HIS553 3.1 25.0 1.0
ZN A:ZN802 3.3 25.2 1.0
C2 A:TKZ813 3.3 27.3 1.0
OD1 A:ASP387 3.4 23.9 1.0
N2 A:TKZ813 3.8 24.9 1.0
CE1 A:TYR552 4.0 24.7 1.0
C5 A:TKZ813 4.0 23.9 1.0
ND1 A:HIS553 4.1 23.5 1.0
OE1 A:GLU424 4.1 23.8 1.0
CG A:GLU425 4.2 23.6 1.0
O A:HOH951 4.2 25.1 1.0
CG A:HIS553 4.2 24.3 1.0
N1 A:TKZ813 4.3 24.6 1.0
CB A:ASP387 4.3 25.3 1.0
OH A:TYR552 4.3 24.8 1.0
NE2 A:HIS377 4.5 23.6 1.0
CZ A:TYR552 4.5 26.2 1.0
C6 A:TKZ813 4.6 24.8 1.0
CD1 A:TRP381 4.6 25.6 1.0
C3 A:TKZ813 4.7 26.5 1.0
CE1 A:HIS377 4.7 24.3 1.0
NE1 A:TRP381 4.8 24.8 1.0
O5 A:TKZ813 4.8 24.5 1.0
OD2 A:ASP453 4.9 25.2 1.0
CD1 A:TYR552 4.9 26.5 1.0
CD A:GLU424 5.0 23.9 1.0

Zinc binding site 2 out of 2 in 7bfz

Go back to Zinc Binding Sites List in 7bfz
Zinc binding site 2 out of 2 in the X-Ray Structure of Human Prostate-Specific Membrane Antigen(Psma) in Complex with A Inhibitor Glu-490


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 Prostate-Specific Membrane Antigen(Psma) in Complex with A Inhibitor Glu-490 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn802

b:25.2
occ:1.00
O A:HOH1202 1.8 24.0 1.0
OD2 A:ASP453 2.0 25.2 1.0
NE2 A:HIS377 2.0 23.6 1.0
OD1 A:ASP387 2.0 23.9 1.0
CG A:ASP453 2.7 26.3 1.0
OD1 A:ASP453 2.8 27.2 1.0
CG A:ASP387 2.9 26.6 1.0
CE1 A:HIS377 3.0 24.3 1.0
CD2 A:HIS377 3.0 22.9 1.0
OD2 A:ASP387 3.2 26.6 1.0
ZN A:ZN801 3.3 25.7 1.0
OE2 A:GLU425 3.6 24.1 1.0
OE1 A:GLU424 3.7 23.8 1.0
CD A:GLU424 4.0 23.9 1.0
ND1 A:HIS377 4.1 24.7 1.0
OE2 A:GLU424 4.1 23.5 1.0
CG A:HIS377 4.2 23.6 1.0
CB A:ASP453 4.2 23.6 1.0
CB A:ASP387 4.2 25.3 1.0
ND2 A:ASN519 4.2 22.4 1.0
CB A:PRO388 4.3 24.3 1.0
CD A:GLU425 4.3 25.1 1.0
C2 A:TKZ813 4.4 27.3 1.0
O6 A:TKZ813 4.4 25.5 1.0
CA A:PRO388 4.6 25.2 1.0
CA A:ASP387 4.6 26.8 1.0
C A:ASP387 4.6 25.4 1.0
OE1 A:GLU425 4.6 24.9 1.0
N1 A:TKZ813 4.6 24.6 1.0
N A:PRO388 4.7 25.6 1.0
OG A:SER454 4.7 20.6 0.7
O A:HOH1068 4.8 31.8 1.0
N2 A:TKZ813 4.8 24.9 1.0
CG A:GLU424 4.9 22.4 1.0

Reference:

A.Rakhimbekova, L.Motlova, C.Barinka. X-Ray Structure of Human Prostate-Specific Membrane Antigen(Psma) in Complex with A Inhibitor Glu-490 To Be Published.
Page generated: Sat Aug 21 17:59:59 2021

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