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Zinc in PDB 2pj7: Crystal Structure of Activated Porcine Pancreatic Carboxypeptidase B 2-(3-Aminomethyl-Phenyl)-3-[((R)-1- Benzenesulfonylamino-2-Methyl-Propyl)-Hydroxy-Phosphinoyl]- Propionic Acid Complex

Enzymatic activity of Crystal Structure of Activated Porcine Pancreatic Carboxypeptidase B 2-(3-Aminomethyl-Phenyl)-3-[((R)-1- Benzenesulfonylamino-2-Methyl-Propyl)-Hydroxy-Phosphinoyl]- Propionic Acid Complex

All present enzymatic activity of Crystal Structure of Activated Porcine Pancreatic Carboxypeptidase B 2-(3-Aminomethyl-Phenyl)-3-[((R)-1- Benzenesulfonylamino-2-Methyl-Propyl)-Hydroxy-Phosphinoyl]- Propionic Acid Complex:
3.4.17.2;

Protein crystallography data

The structure of Crystal Structure of Activated Porcine Pancreatic Carboxypeptidase B 2-(3-Aminomethyl-Phenyl)-3-[((R)-1- Benzenesulfonylamino-2-Methyl-Propyl)-Hydroxy-Phosphinoyl]- Propionic Acid Complex, PDB code: 2pj7 was solved by M.Adler, M.Whitlow, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 24.41 / 1.77
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 66.642, 96.377, 136.277, 90.00, 90.00, 90.00
R / Rfree (%) 20 / 22.6

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Activated Porcine Pancreatic Carboxypeptidase B 2-(3-Aminomethyl-Phenyl)-3-[((R)-1- Benzenesulfonylamino-2-Methyl-Propyl)-Hydroxy-Phosphinoyl]- Propionic Acid Complex (pdb code 2pj7). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Crystal Structure of Activated Porcine Pancreatic Carboxypeptidase B 2-(3-Aminomethyl-Phenyl)-3-[((R)-1- Benzenesulfonylamino-2-Methyl-Propyl)-Hydroxy-Phosphinoyl]- Propionic Acid Complex, PDB code: 2pj7:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in 2pj7

Go back to Zinc Binding Sites List in 2pj7
Zinc binding site 1 out of 3 in the Crystal Structure of Activated Porcine Pancreatic Carboxypeptidase B 2-(3-Aminomethyl-Phenyl)-3-[((R)-1- Benzenesulfonylamino-2-Methyl-Propyl)-Hydroxy-Phosphinoyl]- Propionic Acid Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of Activated Porcine Pancreatic Carboxypeptidase B 2-(3-Aminomethyl-Phenyl)-3-[((R)-1- Benzenesulfonylamino-2-Methyl-Propyl)-Hydroxy-Phosphinoyl]- Propionic Acid Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn400

b:16.6
occ:1.00
 OE1 A:GLU72 2.1 12.9 1.0
ND1 A:HIS69 2.1 10.6 1.0
ND1 A:HIS196 2.1 13.2 1.0
O25 A:235401 2.3 18.8 1.0
OE2 A:GLU72 2.5 15.7 1.0
CD A:GLU72 2.6 15.1 1.0
O26 A:235401 2.8 19.3 1.0
CE1 A:HIS69 2.9 12.4 1.0
P24 A:235401 3.0 17.2 1.0
CE1 A:HIS196 3.1 13.4 1.0
CG A:HIS196 3.2 11.3 1.0
CG A:HIS69 3.2 13.7 1.0
CB A:HIS196 3.5 11.6 1.0
CB A:HIS69 3.6 11.0 1.0
CG A:GLU72 4.1 13.7 1.0
O A:SER197 4.1 11.6 1.0
NE2 A:HIS69 4.2 11.1 1.0
O A:HOH524 4.2 14.5 1.0
C27 A:235401 4.2 19.2 1.0
O A:HOH526 4.2 15.2 1.0
CD2 A:HIS69 4.3 11.3 1.0
NE2 A:HIS196 4.3 13.5 1.0
CD2 A:HIS196 4.3 11.8 1.0
C15 A:235401 4.3 18.0 1.0
C1 A:235401 4.4 19.6 1.0
NH1 A:ARG127 4.4 13.2 1.0
CA A:HIS196 4.5 10.4 1.0
OE2 A:GLU270 4.5 18.7 1.0
C2 A:235401 4.7 19.8 1.0
O14 A:235401 4.7 18.3 1.0
N A:SER197 4.7 9.8 1.0
CA A:HIS69 4.9 11.4 1.0
N A:HIS69 5.0 11.5 1.0
OE1 A:GLU270 5.0 16.9 1.0

Zinc binding site 2 out of 3 in 2pj7

Go back to Zinc Binding Sites List in 2pj7
Zinc binding site 2 out of 3 in the Crystal Structure of Activated Porcine Pancreatic Carboxypeptidase B 2-(3-Aminomethyl-Phenyl)-3-[((R)-1- Benzenesulfonylamino-2-Methyl-Propyl)-Hydroxy-Phosphinoyl]- Propionic Acid Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of Activated Porcine Pancreatic Carboxypeptidase B 2-(3-Aminomethyl-Phenyl)-3-[((R)-1- Benzenesulfonylamino-2-Methyl-Propyl)-Hydroxy-Phosphinoyl]- Propionic Acid Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn500

b:13.3
occ:1.00
 ND1 B:HIS69 2.1 12.1 1.0
ND1 B:HIS196 2.1 13.3 1.0
OE1 B:GLU72 2.1 11.0 1.0
O25 B:235501 2.3 13.7 1.0
OE2 B:GLU72 2.4 10.5 1.0
CD B:GLU72 2.6 11.0 1.0
O26 B:235501 2.8 16.3 1.0
P24 B:235501 3.0 14.9 1.0
CE1 B:HIS69 3.0 13.0 1.0
CE1 B:HIS196 3.1 13.7 1.0
CG B:HIS196 3.2 10.2 1.0
CG B:HIS69 3.2 12.1 1.0
CB B:HIS196 3.5 8.9 1.0
CB B:HIS69 3.6 10.4 1.0
CG B:GLU72 4.1 11.9 1.0
O B:HOH654 4.1 14.2 1.0
O B:SER197 4.2 10.2 1.0
C27 B:235501 4.2 17.0 1.0
NE2 B:HIS69 4.2 13.1 1.0
O B:HOH665 4.2 11.2 1.0
NE2 B:HIS196 4.3 11.6 1.0
CD2 B:HIS69 4.3 13.9 1.0
CD2 B:HIS196 4.3 10.7 1.0
C15 B:235501 4.3 14.2 1.0
C1 B:235501 4.4 16.2 1.0
CA B:HIS196 4.5 11.4 1.0
NH1 B:ARG127 4.5 15.0 1.0
OE2 B:GLU270 4.6 20.0 1.0
O14 B:235501 4.7 16.4 1.0
C2 B:235501 4.7 16.6 1.0
N B:SER197 4.7 12.0 1.0
CA B:HIS69 4.9 11.0 1.0
OE1 B:GLU270 4.9 17.7 1.0

Zinc binding site 3 out of 3 in 2pj7

Go back to Zinc Binding Sites List in 2pj7
Zinc binding site 3 out of 3 in the Crystal Structure of Activated Porcine Pancreatic Carboxypeptidase B 2-(3-Aminomethyl-Phenyl)-3-[((R)-1- Benzenesulfonylamino-2-Methyl-Propyl)-Hydroxy-Phosphinoyl]- Propionic Acid Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure of Activated Porcine Pancreatic Carboxypeptidase B 2-(3-Aminomethyl-Phenyl)-3-[((R)-1- Benzenesulfonylamino-2-Methyl-Propyl)-Hydroxy-Phosphinoyl]- Propionic Acid Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn600

b:12.3
occ:1.00
 ND1 C:HIS69 2.1 10.2 1.0
ND1 C:HIS196 2.1 12.1 1.0
OE1 C:GLU72 2.2 11.3 1.0
O25 C:235601 2.4 19.1 1.0
OE2 C:GLU72 2.4 8.7 1.0
CD C:GLU72 2.6 10.4 1.0
O26 C:235601 2.7 20.5 1.0
P24 C:235601 3.0 16.9 1.0
CE1 C:HIS69 3.0 12.6 1.0
CE1 C:HIS196 3.1 13.2 1.0
CG C:HIS196 3.1 13.3 1.0
CG C:HIS69 3.2 11.7 1.0
CB C:HIS196 3.4 10.0 1.0
CB C:HIS69 3.6 9.1 1.0
CG C:GLU72 4.1 12.1 1.0
O C:SER197 4.1 11.1 1.0
O C:HOH738 4.2 13.4 1.0
NE2 C:HIS69 4.2 13.4 1.0
C27 C:235601 4.2 19.2 1.0
NE2 C:HIS196 4.2 14.4 1.0
CD2 C:HIS196 4.3 14.1 1.0
CD2 C:HIS69 4.3 11.3 1.0
C15 C:235601 4.3 16.2 1.0
C1 C:235601 4.4 16.2 1.0
NH1 C:ARG127 4.4 13.2 1.0
O C:HOH725 4.4 16.9 1.0
CA C:HIS196 4.4 8.6 1.0
O14 C:235601 4.5 18.7 1.0
C2 C:235601 4.6 17.6 1.0
N C:SER197 4.6 9.8 1.0
OE2 C:GLU270 4.8 19.5 1.0
CA C:HIS69 4.9 10.0 1.0
OE1 C:GLU270 4.9 17.2 1.0
N C:HIS69 4.9 10.9 1.0

Reference:

M.Adler, B.Buckman, J.Bryant, Z.Chang, K.Chu, K.Emayan, P.Hrvatin, I.Islam, J.Morser, D.Sukovich, C.West, S.Yuan, M.Whitlow. Structures of Potent Selective Peptide Mimetics Bound to Carboxypeptidase B. Acta Crystallogr.,Sect.D V. 64 149 2008.
ISSN: ISSN 0907-4449
PubMed: 18219114
DOI: 10.1107/S0907444907057228
Page generated: Thu Oct 17 03:03:46 2024

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