Atomistry » Calcium » PDB 4gdj-4gna » 4gm5
Atomistry »
  Calcium »
    PDB 4gdj-4gna »
      4gm5 »

Calcium in PDB 4gm5: Carboxypeptidase T with Sulphamoil Arginine

Enzymatic activity of Carboxypeptidase T with Sulphamoil Arginine

All present enzymatic activity of Carboxypeptidase T with Sulphamoil Arginine:
3.4.17.18;

Protein crystallography data

The structure of Carboxypeptidase T with Sulphamoil Arginine, PDB code: 4gm5 was solved by S.A.Kuznetsov, V.I.Timofeev, V.K.Akparov, I.P.Kuranova, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 1.39
Space group P 63 2 2
Cell size a, b, c (Å), α, β, γ (°) 158.050, 158.050, 104.980, 90.00, 90.00, 120.00
R / Rfree (%) 14.2 / 16.2

Other elements in 4gm5:

The structure of Carboxypeptidase T with Sulphamoil Arginine also contains other interesting chemical elements:

Zinc (Zn) 1 atom

Calcium Binding Sites:

The binding sites of Calcium atom in the Carboxypeptidase T with Sulphamoil Arginine (pdb code 4gm5). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the Carboxypeptidase T with Sulphamoil Arginine, PDB code: 4gm5:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in 4gm5

Go back to Calcium Binding Sites List in 4gm5
Calcium binding site 1 out of 4 in the Carboxypeptidase T with Sulphamoil Arginine


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Carboxypeptidase T with Sulphamoil Arginine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca402

b:21.9
occ:1.00
O A:HOH748 2.3 20.7 1.0
O A:SER7 2.3 14.9 0.9
O A:HOH656 2.3 33.0 1.0
O A:TYR9 2.4 12.8 0.9
O A:HOH578 2.4 25.9 1.0
OE1 A:GLU14 2.5 14.3 0.8
OE2 A:GLU14 2.7 17.7 0.8
CD A:GLU14 2.9 14.5 0.8
C A:SER7 3.5 12.5 0.7
C A:TYR9 3.5 10.3 0.6
CA A:SER7 4.2 14.0 0.8
CA A:HIS10 4.3 12.3 1.0
O A:HOH629 4.3 28.5 1.0
C A:GLY8 4.3 12.8 0.9
N A:TYR9 4.3 11.4 1.0
N A:HIS10 4.3 11.9 1.0
CG A:GLU14 4.4 13.9 1.0
N A:GLY8 4.5 14.6 1.0
CA A:TYR9 4.6 11.0 1.0
O A:HOH719 4.6 35.6 1.0
O A:HOH640 4.6 25.3 1.0
N A:ASN11 4.6 12.2 1.0
O A:GLY8 4.6 15.4 1.0
CA A:GLY8 4.6 13.9 1.0
O A:HOH880 4.7 42.4 1.0
CB A:SER7 4.7 16.8 1.0
CB A:GLU14 4.9 14.0 1.0
C A:HIS10 5.0 11.7 1.0

Calcium binding site 2 out of 4 in 4gm5

Go back to Calcium Binding Sites List in 4gm5
Calcium binding site 2 out of 4 in the Carboxypeptidase T with Sulphamoil Arginine


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Carboxypeptidase T with Sulphamoil Arginine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca403

b:20.3
occ:1.00
OG A:SER50 2.3 15.4 0.8
OE1 A:GLU57 2.3 25.5 1.0
O A:ASP51 2.3 19.0 0.9
OD1 A:ASP51 2.4 23.3 0.9
OE1 A:GLU59 2.4 22.6 0.8
O A:HOH585 2.4 19.9 1.0
CD A:GLU59 3.3 27.4 0.8
CB A:SER50 3.4 15.6 1.0
C A:ASP51 3.4 16.9 0.9
CD A:GLU57 3.4 25.8 0.7
CG A:ASP51 3.6 19.2 0.6
OE2 A:GLU59 3.6 34.0 0.8
N A:ASP51 3.7 15.7 1.0
O A:HOH750 3.8 22.1 1.0
CA A:ASP51 4.0 18.5 1.0
CG A:GLU57 4.0 24.5 1.0
C A:SER50 4.1 14.0 0.8
CG A:GLU104 4.2 16.3 1.0
CB A:GLU57 4.3 22.6 1.0
CA A:SER50 4.3 14.4 1.0
O A:ARG103 4.3 13.9 0.8
OE2 A:GLU104 4.4 17.2 0.8
CB A:ASP51 4.4 20.6 1.0
OD2 A:ASP51 4.4 21.9 0.6
O A:ASN52 4.4 19.5 1.0
N A:ASN52 4.5 18.6 0.8
OE2 A:GLU57 4.5 21.6 0.3
CB A:ASN52 4.5 21.4 1.0
O A:VAL100 4.5 15.0 0.9
CG A:GLU59 4.6 27.4 1.0
C A:ASN52 4.6 19.1 0.9
CD A:GLU104 4.7 16.8 0.6
OD1 A:ASN52 4.8 25.5 0.6
CA A:ASN52 4.8 20.0 0.9
O A:SER50 4.9 14.9 0.9
O A:ASN101 5.0 17.2 0.8

Calcium binding site 3 out of 4 in 4gm5

Go back to Calcium Binding Sites List in 4gm5
Calcium binding site 3 out of 4 in the Carboxypeptidase T with Sulphamoil Arginine


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Carboxypeptidase T with Sulphamoil Arginine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca404

b:39.1
occ:1.00
O A:HOH628 2.3 23.3 1.0
O A:TYR5 2.3 18.2 0.9
O A:HOH763 2.4 31.6 0.7
OE2 A:GLU292 2.4 23.4 0.5
OD1 A:ASP291 2.4 15.6 0.9
O A:HOH764 2.5 39.0 0.7
OE1 A:GLU292 2.6 21.5 1.0
CD A:GLU292 2.9 20.3 0.4
CG A:ASP291 3.4 12.7 0.8
C A:TYR5 3.5 15.1 0.6
OD2 A:ASP291 3.8 14.7 0.9
O A:HOH815 3.8 38.9 1.0
CA A:TYR5 4.3 18.9 0.9
CG A:GLU292 4.3 18.6 0.7
N A:ASP291 4.4 12.4 1.0
OD1 A:ASP6 4.4 14.2 0.9
O A:HOH765 4.4 27.3 0.7
N A:GLU292 4.5 12.9 1.0
N A:ASP6 4.6 15.9 1.0
CB A:TYR5 4.6 22.0 1.0
CB A:ASP291 4.6 13.1 1.0
CA A:ASP6 4.8 13.9 1.0
CA A:ASP291 4.9 11.7 1.0
O A:HOH816 4.9 39.1 1.0
CB A:PRO290 5.0 15.3 0.9

Calcium binding site 4 out of 4 in 4gm5

Go back to Calcium Binding Sites List in 4gm5
Calcium binding site 4 out of 4 in the Carboxypeptidase T with Sulphamoil Arginine


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Carboxypeptidase T with Sulphamoil Arginine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca405

b:22.2
occ:1.00
O A:HOH747 2.2 22.3 1.0
OE1 A:GLU104 2.3 21.9 1.0
OE2 A:GLU61 2.4 16.8 1.0
OD1 A:ASP56 2.4 18.8 0.8
O A:GLU57 2.4 20.6 0.8
O A:HOH612 2.4 23.2 1.0
CD A:GLU104 3.4 16.8 0.6
CG A:ASP56 3.4 19.8 0.4
CD A:GLU61 3.5 12.6 0.8
C A:GLU57 3.7 20.3 0.6
NH2 A:ARG189 3.8 19.5 0.9
O A:HOH671 3.8 30.8 1.0
OE2 A:GLU104 3.9 17.2 0.8
OD2 A:ASP56 3.9 18.6 0.5
O A:GLU59 3.9 15.9 0.9
CG A:GLU61 3.9 13.2 1.0
N A:GLU57 4.0 19.2 0.9
N A:GLU59 4.3 22.8 1.0
C A:ASP56 4.4 20.3 0.9
NE2 A:GLN196 4.5 17.1 1.0
CA A:GLU57 4.5 20.0 1.0
OE1 A:GLU61 4.6 12.1 0.8
O A:HOH784 4.6 34.8 1.0
N A:ASN58 4.6 22.2 0.1
N A:ASN58 4.6 24.4 0.8
CA A:ASN58 4.6 22.8 0.1
CA A:ASN58 4.6 26.0 0.8
CG A:GLU104 4.6 16.3 1.0
CB A:ASP56 4.6 21.8 1.0
CA A:ASP56 4.7 18.4 0.8
CG A:GLN196 4.7 14.6 1.0
CB A:GLN196 4.8 13.8 1.0
CB A:GLU104 4.9 15.1 1.0
C A:GLU59 4.9 17.9 1.0

Reference:

S.A.Kuznetsov, V.I.Timofeev, V.K.Akparov, I.P.Kuranova. Carboxypeptidase T with Sulphamoil Arginine To Be Published.
Page generated: Sat Dec 12 04:48:21 2020

Last articles

Zn in 7VD8
Zn in 7V1R
Zn in 7V1Q
Zn in 7VPF
Zn in 7T85
Zn in 7T5F
Zn in 7NF9
Zn in 7M4M
Zn in 7M4O
Zn in 7M4N
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy