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Zinc in PDB 5o5u: X-Ray Structure of Human Glutamate Carboxypeptidase II (Gcpii) in Complex with A Urea Based Inhibitor Psma 1027

Enzymatic activity of X-Ray Structure of Human Glutamate Carboxypeptidase II (Gcpii) in Complex with A Urea Based Inhibitor Psma 1027

All present enzymatic activity of X-Ray Structure of Human Glutamate Carboxypeptidase II (Gcpii) in Complex with A Urea Based Inhibitor Psma 1027:
3.4.17.21;

Protein crystallography data

The structure of X-Ray Structure of Human Glutamate Carboxypeptidase II (Gcpii) in Complex with A Urea Based Inhibitor Psma 1027, PDB code: 5o5u was solved by Z.Novakova, C.Barinka, L.Motlova, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.57 / 1.53
Space group I 2 2 2
Cell size a, b, c (Å), α, β, γ (°) 101.790, 130.412, 159.097, 90.00, 90.00, 90.00
R / Rfree (%) 15.7 / 17.1

Other elements in 5o5u:

The structure of X-Ray Structure of Human Glutamate Carboxypeptidase II (Gcpii) in Complex with A Urea Based Inhibitor Psma 1027 also contains other interesting chemical elements:

Fluorine (F) 1 atom
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 Urea Based Inhibitor Psma 1027 (pdb code 5o5u). 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 Urea Based Inhibitor Psma 1027, PDB code: 5o5u:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 5o5u

Go back to Zinc Binding Sites List in 5o5u
Zinc binding site 1 out of 2 in the X-Ray Structure of Human Glutamate Carboxypeptidase II (Gcpii) in Complex with A Urea Based Inhibitor Psma 1027


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 Urea Based Inhibitor Psma 1027 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn820

b:24.3
occ:1.00
 O A:HOH1203 2.0 20.6 1.0
NE2 A:HIS553 2.0 22.8 1.0
OD2 A:ASP387 2.1 25.3 1.0
OE2 A:GLU425 2.1 23.1 1.0
OE1 A:GLU425 2.4 23.6 1.0
OAD A:9LZ824 2.5 23.5 1.0
CD A:GLU425 2.6 25.1 1.0
CG A:ASP387 3.0 25.4 1.0
CE1 A:HIS553 3.0 24.7 1.0
CD2 A:HIS553 3.1 23.9 1.0
ZN A:ZN821 3.3 24.2 1.0
CCC A:9LZ824 3.4 25.6 1.0
OD1 A:ASP387 3.4 23.1 1.0
NBV A:9LZ824 3.9 23.3 1.0
CCQ A:9LZ824 3.9 23.4 1.0
CE1 A:TYR552 4.1 24.0 1.0
OE1 A:GLU424 4.1 22.8 1.0
ND1 A:HIS553 4.1 24.1 1.0
CG A:GLU425 4.1 23.1 1.0
O A:HOH1042 4.1 25.1 1.0
CG A:HIS553 4.2 23.6 1.0
N A:9LZ824 4.2 23.6 1.0
CB A:ASP387 4.3 25.2 1.0
OH A:TYR552 4.3 25.1 1.0
CA A:9LZ824 4.5 23.9 1.0
CCB A:9LZ824 4.5 24.8 1.0
NE2 A:HIS377 4.6 22.7 1.0
CZ A:TYR552 4.6 26.3 1.0
CD1 A:TRP381 4.7 24.9 1.0
OAC A:9LZ824 4.8 25.2 1.0
CE1 A:HIS377 4.8 22.3 1.0
NE1 A:TRP381 4.8 24.8 1.0
OD2 A:ASP453 5.0 24.6 1.0

Zinc binding site 2 out of 2 in 5o5u

Go back to Zinc Binding Sites List in 5o5u
Zinc binding site 2 out of 2 in the X-Ray Structure of Human Glutamate Carboxypeptidase II (Gcpii) in Complex with A Urea Based Inhibitor Psma 1027


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 Urea Based Inhibitor Psma 1027 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn821

b:24.2
occ:1.00
 O A:HOH1203 1.9 20.6 1.0
OD1 A:ASP387 2.0 23.1 1.0
OD2 A:ASP453 2.0 24.6 1.0
NE2 A:HIS377 2.0 22.7 1.0
CG A:ASP453 2.8 28.0 1.0
OD1 A:ASP453 2.9 29.1 1.0
CG A:ASP387 2.9 25.4 1.0
CE1 A:HIS377 3.0 22.3 1.0
CD2 A:HIS377 3.1 23.3 1.0
OD2 A:ASP387 3.3 25.3 1.0
ZN A:ZN820 3.3 24.3 1.0
OE2 A:GLU425 3.6 23.1 1.0
OE1 A:GLU424 3.6 22.8 1.0
CD A:GLU424 4.1 22.7 1.0
ND1 A:HIS377 4.1 23.2 1.0
CB A:ASP453 4.1 25.1 1.0
CG A:HIS377 4.2 21.9 1.0
ND2 A:ASN519 4.2 22.9 1.0
OE2 A:GLU424 4.2 23.1 1.0
CB A:ASP387 4.2 25.2 1.0
CB A:PRO388 4.3 23.8 1.0
CD A:GLU425 4.3 25.1 1.0
CA A:ASP387 4.5 24.8 1.0
CCC A:9LZ824 4.6 25.6 1.0
OAD A:9LZ824 4.6 23.5 1.0
CA A:PRO388 4.6 23.6 1.0
C A:ASP387 4.6 25.4 1.0
OE1 A:GLU425 4.6 23.6 1.0
N A:PRO388 4.7 24.6 1.0
N A:9LZ824 4.7 23.6 1.0
OG A:SER454 4.8 25.4 1.0
CA A:9LZ824 4.8 23.9 1.0
C A:9LZ824 4.9 26.6 1.0
O A:HOH1161 4.9 29.2 1.0
NBV A:9LZ824 4.9 23.3 1.0
CG A:GLU424 5.0 22.1 1.0

Reference:

Z.Novakova, C.Barinka, L.Motlova. X-Ray Structure of Human Glutamate Carboxypeptidase II (Gcpii) in Complex with A Urea Based Inhibitor Psma 1027 To Be Published.
Page generated: Sun Oct 27 23:15:17 2024

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