Atomistry » Zinc » PDB 3w52-3wnq » 3wc7
Atomistry »
  Zinc »
    PDB 3w52-3wnq »
      3wc7 »

Zinc in PDB 3wc7: Carboxypeptidase B in Complex with EF6265

Enzymatic activity of Carboxypeptidase B in Complex with EF6265

All present enzymatic activity of Carboxypeptidase B in Complex with EF6265:
3.4.17.2;

Protein crystallography data

The structure of Carboxypeptidase B in Complex with EF6265, PDB code: 3wc7 was solved by N.Yoshimoto, T.Itoh, Y.Inaba, K.Yamamoto, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 27.02 / 1.90
Space group P 41 21 2
Cell size a, b, c (Å), α, β, γ (°) 79.360, 79.360, 100.160, 90.00, 90.00, 90.00
R / Rfree (%) 18.1 / 20.7

Zinc Binding Sites:

The binding sites of Zinc atom in the Carboxypeptidase B in Complex with EF6265 (pdb code 3wc7). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Carboxypeptidase B in Complex with EF6265, PDB code: 3wc7:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 3wc7

Go back to Zinc Binding Sites List in 3wc7
Zinc binding site 1 out of 2 in the Carboxypeptidase B in Complex with EF6265


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Carboxypeptidase B in Complex with EF6265 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn401

b:26.8
occ:1.00
OE1 A:GLU291 2.0 27.7 1.0
O A:HOH641 2.1 33.7 1.0
OE2 A:GLU85 2.1 28.6 1.0
OE2 A:GLU291 2.3 27.7 1.0
CD A:GLU291 2.5 28.5 1.0
CD A:GLU85 3.0 29.1 1.0
OE1 A:GLU85 3.3 29.4 1.0
NH2 A:ARG84 3.9 27.4 1.0
CG A:GLU291 4.1 27.9 1.0
NE1 A:TRP81 4.3 27.1 1.0
O A:HOH538 4.4 29.9 1.0
CG A:GLU85 4.4 27.6 1.0
O A:HOH621 4.5 33.4 1.0
CZ2 A:TRP81 5.0 27.9 1.0

Zinc binding site 2 out of 2 in 3wc7

Go back to Zinc Binding Sites List in 3wc7
Zinc binding site 2 out of 2 in the Carboxypeptidase B in Complex with EF6265


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Carboxypeptidase B in Complex with EF6265 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn402

b:22.9
occ:1.00
OE2 A:GLU72 2.1 24.3 1.0
O19 A:EF1403 2.1 35.5 0.5
ND1 A:HIS196 2.1 26.1 1.0
O19 A:EF1403 2.1 35.5 0.5
ND1 A:HIS69 2.1 25.6 1.0
OE1 A:GLU72 2.6 23.7 1.0
CD A:GLU72 2.7 23.6 1.0
O18 A:EF1403 2.7 29.7 0.5
O18 A:EF1403 2.7 29.7 0.5
P13 A:EF1403 2.8 30.9 0.5
P13 A:EF1403 2.8 30.9 0.5
CE1 A:HIS69 3.0 24.8 1.0
CE1 A:HIS196 3.0 25.7 1.0
CG A:HIS196 3.1 26.1 1.0
CG A:HIS69 3.2 25.8 1.0
CB A:HIS196 3.5 25.4 1.0
CB A:HIS69 3.6 25.6 1.0
NH1 A:ARG127 4.0 25.4 1.0
C12 A:EF1403 4.0 32.1 0.5
C12 A:EF1403 4.1 32.1 0.5
O A:HOH574 4.1 29.6 1.0
NE2 A:HIS69 4.1 25.4 1.0
NE2 A:HIS196 4.2 25.9 1.0
CG A:GLU72 4.2 25.5 1.0
O A:SER197 4.2 26.2 1.0
C17 A:EF1403 4.2 30.1 0.5
C17 A:EF1403 4.2 30.1 0.5
CD2 A:HIS196 4.2 24.9 1.0
CD2 A:HIS69 4.3 24.8 1.0
C20 A:EF1403 4.3 34.3 0.5
C20 A:EF1403 4.3 34.3 0.5
O A:HOH507 4.3 27.3 1.0
O23 A:EF1403 4.4 41.5 0.5
O23 A:EF1403 4.4 41.5 0.5
C21 A:EF1403 4.4 37.4 0.5
C21 A:EF1403 4.4 37.4 0.5
CA A:HIS196 4.5 25.4 1.0
N A:SER197 4.7 25.6 1.0
CA A:HIS69 4.9 26.3 1.0
CZ A:ARG127 4.9 25.4 1.0
N10 A:EF1403 4.9 30.6 0.5
OE1 A:GLU270 5.0 25.2 1.0
N10 A:EF1403 5.0 30.7 0.5

Reference:

N.Yoshimoto, T.Itoh, Y.Inaba, H.Ishii, K.Yamamoto. Structural Basis For Inhibition of Carboxypeptidase B By Selenium-Containing Inhibitor: Selenium Coordinates to Zinc in Enzyme J.Med.Chem. 2013.
ISSN: ISSN 0022-2623
PubMed: 24010887
DOI: 10.1021/JM400816V
Page generated: Wed Dec 16 04:57:14 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy