Atomistry » Zinc » PDB 2b65-2bmi » 2bgn
Atomistry »
  Zinc »
    PDB 2b65-2bmi »
      2bgn »

Zinc in PDB 2bgn: Hiv-1 Tat Protein Derived N-Terminal Nonapeptide TRP2-Tat (1-9) Bound to the Active Site of Dipeptidyl Peptidase IV (CD26)

Enzymatic activity of Hiv-1 Tat Protein Derived N-Terminal Nonapeptide TRP2-Tat (1-9) Bound to the Active Site of Dipeptidyl Peptidase IV (CD26)

All present enzymatic activity of Hiv-1 Tat Protein Derived N-Terminal Nonapeptide TRP2-Tat (1-9) Bound to the Active Site of Dipeptidyl Peptidase IV (CD26):
3.4.14.5; 3.5.4.4;

Protein crystallography data

The structure of Hiv-1 Tat Protein Derived N-Terminal Nonapeptide TRP2-Tat (1-9) Bound to the Active Site of Dipeptidyl Peptidase IV (CD26), PDB code: 2bgn was solved by W.A.Weihofen, J.Liu, W.Reutter, W.Saenger, H.Fan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.00 / 3.15
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 158.945, 170.273, 239.200, 90.00, 100.93, 90.00
R / Rfree (%) 22.7 / 24.7

Zinc Binding Sites:

The binding sites of Zinc atom in the Hiv-1 Tat Protein Derived N-Terminal Nonapeptide TRP2-Tat (1-9) Bound to the Active Site of Dipeptidyl Peptidase IV (CD26) (pdb code 2bgn). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Hiv-1 Tat Protein Derived N-Terminal Nonapeptide TRP2-Tat (1-9) Bound to the Active Site of Dipeptidyl Peptidase IV (CD26), PDB code: 2bgn:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in 2bgn

Go back to Zinc Binding Sites List in 2bgn
Zinc binding site 1 out of 4 in the Hiv-1 Tat Protein Derived N-Terminal Nonapeptide TRP2-Tat (1-9) Bound to the Active Site of Dipeptidyl Peptidase IV (CD26)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Hiv-1 Tat Protein Derived N-Terminal Nonapeptide TRP2-Tat (1-9) Bound to the Active Site of Dipeptidyl Peptidase IV (CD26) within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Zn501

b:66.3
occ:1.00
 NE2 E:HIS214 2.0 81.7 1.0
NE2 E:HIS17 2.1 81.3 1.0
NE2 E:HIS15 2.1 80.9 1.0
OD1 E:ASP295 2.2 71.4 1.0
CE1 E:HIS214 2.8 82.2 1.0
CE1 E:HIS15 2.9 81.0 1.0
CD2 E:HIS17 2.9 81.4 1.0
CG E:ASP295 3.1 71.7 1.0
CD2 E:HIS214 3.1 82.8 1.0
CE1 E:HIS17 3.1 81.3 1.0
CD2 E:HIS15 3.2 81.1 1.0
OD2 E:ASP295 3.3 68.5 1.0
NE2 E:HIS238 3.9 71.7 1.0
ND1 E:HIS214 4.0 82.3 1.0
ND1 E:HIS15 4.1 80.6 1.0
CG E:HIS17 4.1 80.7 1.0
CG E:HIS214 4.2 82.6 1.0
ND1 E:HIS17 4.2 80.8 1.0
CG E:HIS15 4.2 80.9 1.0
CB E:ASP295 4.5 73.3 1.0
CD2 E:HIS238 4.6 73.0 1.0
CD E:ARG101 4.7 82.3 1.0
OD1 E:ASP296 4.8 74.1 1.0
CA E:ASP295 4.8 73.5 1.0
CE1 E:HIS238 5.0 72.0 1.0

Zinc binding site 2 out of 4 in 2bgn

Go back to Zinc Binding Sites List in 2bgn
Zinc binding site 2 out of 4 in the Hiv-1 Tat Protein Derived N-Terminal Nonapeptide TRP2-Tat (1-9) Bound to the Active Site of Dipeptidyl Peptidase IV (CD26)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Hiv-1 Tat Protein Derived N-Terminal Nonapeptide TRP2-Tat (1-9) Bound to the Active Site of Dipeptidyl Peptidase IV (CD26) within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Zn501

b:83.2
occ:1.00
 NE2 F:HIS214 2.1 81.9 1.0
NE2 F:HIS15 2.1 81.1 1.0
NE2 F:HIS17 2.1 81.6 1.0
OD1 F:ASP295 2.2 78.4 1.0
CE1 F:HIS214 2.9 82.2 1.0
CE1 F:HIS15 3.0 81.0 1.0
CD2 F:HIS17 3.0 81.4 1.0
CG F:ASP295 3.1 78.7 1.0
CD2 F:HIS214 3.1 82.9 1.0
CD2 F:HIS15 3.2 81.2 1.0
CE1 F:HIS17 3.2 81.4 1.0
OD2 F:ASP295 3.3 77.7 1.0
ND1 F:HIS214 4.1 82.4 1.0
ND1 F:HIS15 4.1 80.6 1.0
CG F:HIS17 4.2 80.7 1.0
CG F:HIS214 4.2 82.7 1.0
CG F:HIS15 4.2 81.0 1.0
ND1 F:HIS17 4.3 80.8 1.0
CB F:ASP295 4.5 79.2 1.0
NE2 F:HIS238 4.6 82.2 1.0
CD2 F:HIS238 4.6 82.3 1.0
O F:ASP295 4.7 79.4 1.0
CD F:ARG101 4.8 82.3 1.0
CA F:ASP295 4.8 79.4 1.0
OD1 F:ASP296 5.0 78.8 1.0

Zinc binding site 3 out of 4 in 2bgn

Go back to Zinc Binding Sites List in 2bgn
Zinc binding site 3 out of 4 in the Hiv-1 Tat Protein Derived N-Terminal Nonapeptide TRP2-Tat (1-9) Bound to the Active Site of Dipeptidyl Peptidase IV (CD26)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Hiv-1 Tat Protein Derived N-Terminal Nonapeptide TRP2-Tat (1-9) Bound to the Active Site of Dipeptidyl Peptidase IV (CD26) within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Zn501

b:85.3
occ:1.00
 NE2 G:HIS15 2.1 81.1 1.0
NE2 G:HIS17 2.1 81.5 1.0
NE2 G:HIS214 2.1 81.9 1.0
OD1 G:ASP295 2.2 81.5 1.0
CD2 G:HIS17 2.9 81.4 1.0
CE1 G:HIS214 2.9 82.2 1.0
CE1 G:HIS15 3.0 81.0 1.0
CG G:ASP295 3.1 82.0 1.0
CD2 G:HIS15 3.1 81.2 1.0
CD2 G:HIS214 3.2 82.9 1.0
CE1 G:HIS17 3.2 81.3 1.0
OD2 G:ASP295 3.2 80.7 1.0
NE2 G:HIS238 3.9 86.9 1.0
ND1 G:HIS15 4.1 80.6 1.0
ND1 G:HIS214 4.1 82.4 1.0
CG G:HIS17 4.1 80.7 1.0
CG G:HIS15 4.2 81.0 1.0
ND1 G:HIS17 4.2 80.9 1.0
CG G:HIS214 4.3 82.7 1.0
CB G:ASP295 4.5 82.2 1.0
CD2 G:HIS238 4.6 85.9 1.0
OD1 G:ASP296 4.7 84.9 1.0
CD G:ARG101 4.7 82.3 1.0
CA G:ASP295 4.9 82.2 1.0
CE1 G:HIS238 5.0 86.8 1.0

Zinc binding site 4 out of 4 in 2bgn

Go back to Zinc Binding Sites List in 2bgn
Zinc binding site 4 out of 4 in the Hiv-1 Tat Protein Derived N-Terminal Nonapeptide TRP2-Tat (1-9) Bound to the Active Site of Dipeptidyl Peptidase IV (CD26)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Hiv-1 Tat Protein Derived N-Terminal Nonapeptide TRP2-Tat (1-9) Bound to the Active Site of Dipeptidyl Peptidase IV (CD26) within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Zn501

b:84.0
occ:1.00
 NE2 H:HIS15 2.1 81.1 1.0
NE2 H:HIS214 2.1 81.9 1.0
NE2 H:HIS17 2.1 81.5 1.0
OD1 H:ASP295 2.2 84.5 1.0
CE1 H:HIS214 2.9 82.2 1.0
CE1 H:HIS15 2.9 81.0 1.0
CD2 H:HIS17 2.9 81.4 1.0
CG H:ASP295 3.1 82.3 1.0
CD2 H:HIS15 3.1 81.1 1.0
CD2 H:HIS214 3.2 82.9 1.0
CE1 H:HIS17 3.2 81.4 1.0
OD2 H:ASP295 3.3 83.1 1.0
NE2 H:HIS238 3.8 86.0 1.0
ND1 H:HIS15 4.0 80.6 1.0
ND1 H:HIS214 4.1 82.4 1.0
CG H:HIS17 4.1 80.7 1.0
CG H:HIS15 4.2 80.9 1.0
CG H:HIS214 4.2 82.7 1.0
ND1 H:HIS17 4.2 80.9 1.0
CB H:ASP295 4.4 81.1 1.0
CD2 H:HIS238 4.5 85.8 1.0
OD1 H:ASP296 4.6 80.0 1.0
CA H:ASP295 4.7 80.8 1.0
CD H:ARG101 4.7 82.3 1.0
CE1 H:HIS238 4.8 86.3 1.0

Reference:

W.A.Weihofen, J.Liu, W.Reutter, W.Saenger, H.Fan. Crystal Structures of Hiv-1 Tat-Derived Nonapeptides Tat-(1-9) and TRP2-Tat-(1-9) Bound to the Active Site of Dipeptidyl-Peptidase IV (CD26) J.Biol.Chem. V. 280 14911 2005.
ISSN: ISSN 0021-9258
PubMed: 15695814
DOI: 10.1074/JBC.M413400200
Page generated: Wed Oct 16 22:01:35 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy