Atomistry » Zinc » PDB 1zfn-1zrp » 1zg9
Atomistry »
  Zinc »
    PDB 1zfn-1zrp »
      1zg9 »

Zinc in PDB 1zg9: Crystal Structure of 5-{[Amino(Imino)Methyl]Amino}-2- (Sulfanylmethyl)Pentanoic Acid Bound to Activated Porcine Pancreatic Carboxypeptidase B

Enzymatic activity of Crystal Structure of 5-{[Amino(Imino)Methyl]Amino}-2- (Sulfanylmethyl)Pentanoic Acid Bound to Activated Porcine Pancreatic Carboxypeptidase B

All present enzymatic activity of Crystal Structure of 5-{[Amino(Imino)Methyl]Amino}-2- (Sulfanylmethyl)Pentanoic Acid Bound to Activated Porcine Pancreatic Carboxypeptidase B:
3.4.17.2;

Protein crystallography data

The structure of Crystal Structure of 5-{[Amino(Imino)Methyl]Amino}-2- (Sulfanylmethyl)Pentanoic Acid Bound to Activated Porcine Pancreatic Carboxypeptidase B, PDB code: 1zg9 was solved by M.Adler, J.Bryant, B.Buckman, I.Islam, B.Larsen, S.Finster, L.Kent, K.May, R.Mohan, S.Yuan, M.Whitlow, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 8.00 / 2.00
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 66.839, 102.484, 136.157, 90.00, 90.00, 90.00
R / Rfree (%) 20.3 / 27.2

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of 5-{[Amino(Imino)Methyl]Amino}-2- (Sulfanylmethyl)Pentanoic Acid Bound to Activated Porcine Pancreatic Carboxypeptidase B (pdb code 1zg9). 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 5-{[Amino(Imino)Methyl]Amino}-2- (Sulfanylmethyl)Pentanoic Acid Bound to Activated Porcine Pancreatic Carboxypeptidase B, PDB code: 1zg9:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in 1zg9

Go back to Zinc Binding Sites List in 1zg9
Zinc binding site 1 out of 3 in the Crystal Structure of 5-{[Amino(Imino)Methyl]Amino}-2- (Sulfanylmethyl)Pentanoic Acid Bound to Activated Porcine Pancreatic Carboxypeptidase B


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 5-{[Amino(Imino)Methyl]Amino}-2- (Sulfanylmethyl)Pentanoic Acid Bound to Activated Porcine Pancreatic Carboxypeptidase B within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn400

b:23.2
occ:1.00
 ND1 A:HIS69 2.1 14.7 1.0
ND1 A:HIS196 2.1 18.6 1.0
S A:L06401 2.2 30.3 1.0
OE1 A:GLU72 2.3 20.9 1.0
OE2 A:GLU72 2.5 18.9 1.0
CD A:GLU72 2.7 19.6 1.0
CE1 A:HIS69 3.0 16.7 1.0
CG A:HIS196 3.1 16.6 1.0
CE1 A:HIS196 3.1 16.6 1.0
CG A:HIS69 3.1 13.2 1.0
C1 A:L06401 3.2 31.0 1.0
CB A:HIS196 3.4 14.7 1.0
CB A:HIS69 3.5 12.2 1.0
O A:HOH1013 4.0 13.1 1.0
NE2 A:HIS69 4.2 17.0 1.0
O A:SER197 4.2 14.2 1.0
NE2 A:HIS196 4.2 18.6 1.0
CD2 A:HIS69 4.2 15.3 1.0
CD2 A:HIS196 4.2 16.1 1.0
CG A:GLU72 4.3 16.1 1.0
CA A:HIS196 4.4 17.6 1.0
C2 A:L06401 4.5 36.0 1.0
O A:HOH1029 4.6 23.2 1.0
O11 A:L06401 4.6 29.8 1.0
NH1 A:ARG127 4.6 30.8 1.0
C10 A:L06401 4.6 34.5 1.0
N A:SER197 4.6 17.4 1.0
CA A:HIS69 4.8 12.0 1.0
N A:HIS69 4.8 10.9 1.0
OE1 A:GLU270 4.9 33.7 1.0

Zinc binding site 2 out of 3 in 1zg9

Go back to Zinc Binding Sites List in 1zg9
Zinc binding site 2 out of 3 in the Crystal Structure of 5-{[Amino(Imino)Methyl]Amino}-2- (Sulfanylmethyl)Pentanoic Acid Bound to Activated Porcine Pancreatic Carboxypeptidase B


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 5-{[Amino(Imino)Methyl]Amino}-2- (Sulfanylmethyl)Pentanoic Acid Bound to Activated Porcine Pancreatic Carboxypeptidase B within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn500

b:24.1
occ:1.00
 ND1 B:HIS69 2.1 18.8 1.0
OE2 B:GLU72 2.1 16.0 1.0
ND1 B:HIS196 2.1 17.4 1.0
OE1 B:GLU72 2.4 19.8 1.0
S B:L06501 2.5 33.4 1.0
CD B:GLU72 2.6 16.4 1.0
CE1 B:HIS69 3.0 18.5 1.0
CG B:HIS196 3.1 16.2 1.0
CG B:HIS69 3.1 19.2 1.0
CE1 B:HIS196 3.2 13.2 1.0
CB B:HIS196 3.3 14.1 1.0
CB B:HIS69 3.5 16.9 1.0
C1 B:L06501 3.6 35.5 1.0
O B:HOH1412 3.8 32.5 1.0
O B:HOH1097 4.1 10.2 1.0
NE2 B:HIS69 4.1 19.4 1.0
CG B:GLU72 4.1 18.5 1.0
O B:SER197 4.2 19.9 1.0
CA B:HIS196 4.2 15.1 1.0
CD2 B:HIS69 4.2 20.0 1.0
CD2 B:HIS196 4.3 16.7 1.0
NE2 B:HIS196 4.3 16.9 1.0
NH1 B:ARG127 4.4 28.3 1.0
N B:SER197 4.4 14.8 1.0
O B:HOH1115 4.5 26.4 1.0
O11 B:L06501 4.7 42.5 1.0
C10 B:L06501 4.7 38.2 1.0
C2 B:L06501 4.8 38.5 1.0
CA B:HIS69 4.8 16.9 1.0
N B:HIS69 4.9 18.2 1.0
C B:HIS196 4.9 13.8 1.0
OE1 B:GLU270 4.9 30.5 1.0
CB B:GLU72 5.0 14.9 1.0

Zinc binding site 3 out of 3 in 1zg9

Go back to Zinc Binding Sites List in 1zg9
Zinc binding site 3 out of 3 in the Crystal Structure of 5-{[Amino(Imino)Methyl]Amino}-2- (Sulfanylmethyl)Pentanoic Acid Bound to Activated Porcine Pancreatic Carboxypeptidase B


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 5-{[Amino(Imino)Methyl]Amino}-2- (Sulfanylmethyl)Pentanoic Acid Bound to Activated Porcine Pancreatic Carboxypeptidase B within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn600

b:22.0
occ:1.00
 ND1 C:HIS69 2.0 17.6 1.0
OE1 C:GLU72 2.1 14.6 1.0
ND1 C:HIS196 2.1 12.3 1.0
S C:L06601 2.4 23.8 1.0
OE2 C:GLU72 2.4 19.7 1.0
CD C:GLU72 2.6 16.3 1.0
CE1 C:HIS69 2.9 14.2 1.0
CE1 C:HIS196 3.0 13.1 1.0
C1 C:L06601 3.0 31.1 1.0
CG C:HIS196 3.2 16.4 1.0
CG C:HIS69 3.2 13.5 1.0
CB C:HIS196 3.6 15.4 1.0
CB C:HIS69 3.6 11.8 1.0
O C:HOH1185 4.1 11.8 1.0
NE2 C:HIS69 4.1 18.2 1.0
CG C:GLU72 4.1 16.0 1.0
NE2 C:HIS196 4.2 15.7 1.0
O C:SER197 4.2 23.5 1.0
NH1 C:ARG127 4.2 22.1 1.0
CD2 C:HIS69 4.2 13.4 1.0
CD2 C:HIS196 4.3 15.5 1.0
O C:HOH1195 4.3 25.2 1.0
C2 C:L06601 4.4 31.5 1.0
O11 C:L06601 4.4 30.6 1.0
CA C:HIS196 4.4 16.8 1.0
C10 C:L06601 4.6 33.9 1.0
N C:SER197 4.6 18.4 1.0
OE1 C:GLU270 4.7 33.7 1.0
CA C:HIS69 4.9 10.5 1.0
N C:HIS69 5.0 15.7 1.0

Reference:

M.Adler, J.Bryant, B.Buckman, I.Islam, B.Larsen, S.Finster, L.Kent, K.May, R.Mohan, S.Yuan, M.Whitlow. Crystal Structures of Potent Thiol-Based Inhibitors Bound to Carboxypeptidase B. Biochemistry V. 44 9339 2005.
ISSN: ISSN 0006-2960
PubMed: 15982000
DOI: 10.1021/BI0501941
Page generated: Wed Oct 16 21:14:44 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy