Atomistry » Calcium » PDB 1ck6-1cxi » 1clc
Atomistry »
  Calcium »
    PDB 1ck6-1cxi »
      1clc »

Calcium in PDB 1clc: Three-Dimensional Structure of Endoglucanase D at 1.9 Angstroms Resolution

Enzymatic activity of Three-Dimensional Structure of Endoglucanase D at 1.9 Angstroms Resolution

All present enzymatic activity of Three-Dimensional Structure of Endoglucanase D at 1.9 Angstroms Resolution:
3.2.1.4;

Protein crystallography data

The structure of Three-Dimensional Structure of Endoglucanase D at 1.9 Angstroms Resolution, PDB code: 1clc was solved by P.M.Alzari, M.B.Lascombe, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 7.00 / 1.90
Space group P 31 2 1
Cell size a, b, c (Å), α, β, γ (°) 98.900, 98.900, 191.400, 90.00, 90.00, 120.00
R / Rfree (%) 20.4 / n/a

Other elements in 1clc:

The structure of Three-Dimensional Structure of Endoglucanase D at 1.9 Angstroms Resolution also contains other interesting chemical elements:

Zinc (Zn) 1 atom

Calcium Binding Sites:

The binding sites of Calcium atom in the Three-Dimensional Structure of Endoglucanase D at 1.9 Angstroms Resolution (pdb code 1clc). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 3 binding sites of Calcium where determined in the Three-Dimensional Structure of Endoglucanase D at 1.9 Angstroms Resolution, PDB code: 1clc:
Jump to Calcium binding site number: 1; 2; 3;

Calcium binding site 1 out of 3 in 1clc

Go back to Calcium Binding Sites List in 1clc
Calcium binding site 1 out of 3 in the Three-Dimensional Structure of Endoglucanase D at 1.9 Angstroms Resolution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Three-Dimensional Structure of Endoglucanase D at 1.9 Angstroms Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca650

b:29.7
occ:1.00
OD1 A:ASN239 2.3 33.6 1.0
OD2 A:ASP246 2.3 26.9 1.0
OD1 A:ASP243 2.3 27.7 1.0
O A:GLU236 2.3 30.6 1.0
O A:ILE241 2.4 32.5 1.0
O A:HOH741 2.4 36.2 1.0
CG A:ASN239 3.4 34.3 1.0
C A:GLU236 3.5 32.5 1.0
CG A:ASP246 3.5 28.6 1.0
CG A:ASP243 3.6 26.9 1.0
C A:ILE241 3.6 29.2 1.0
N A:ASP243 3.8 23.6 1.0
CA A:ASP243 3.9 24.8 1.0
ND2 A:ASN239 4.0 34.8 1.0
CA A:LYS237 4.1 39.7 1.0
C A:PRO242 4.1 26.9 1.0
OD1 A:ASP246 4.1 31.7 1.0
C A:LYS237 4.2 43.5 1.0
N A:ASN239 4.2 45.1 1.0
N A:ILE241 4.2 35.5 1.0
CB A:GLU236 4.2 29.8 1.0
N A:LYS237 4.2 36.6 1.0
O A:LYS237 4.2 48.0 1.0
O A:ASN239 4.3 41.8 1.0
CA A:ILE241 4.3 33.5 1.0
CB A:ASP243 4.4 24.8 1.0
O A:PRO242 4.4 28.0 1.0
OD2 A:ASP243 4.4 29.3 1.0
CA A:GLU236 4.5 31.2 1.0
C A:ASN239 4.5 40.9 1.0
CB A:ASN239 4.6 33.8 1.0
CB A:ILE241 4.6 34.3 1.0
N A:PRO242 4.6 26.6 1.0
O A:HOH819 4.6 47.9 1.0
CB A:ASP246 4.6 22.5 1.0
CA A:ASN239 4.6 37.6 1.0
N A:ASN238 4.7 44.7 1.0
CA A:PRO242 4.7 25.8 1.0

Calcium binding site 2 out of 3 in 1clc

Go back to Calcium Binding Sites List in 1clc
Calcium binding site 2 out of 3 in the Three-Dimensional Structure of Endoglucanase D at 1.9 Angstroms Resolution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Three-Dimensional Structure of Endoglucanase D at 1.9 Angstroms Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca651

b:25.6
occ:1.00
O A:HOH677 2.3 23.6 1.0
OG1 A:THR356 2.4 23.6 1.0
OD1 A:ASP362 2.4 23.2 1.0
OD1 A:ASP361 2.5 29.9 1.0
O A:ASP401 2.5 27.6 1.0
OD2 A:ASP361 2.5 28.3 1.0
O A:HOH730 2.5 28.7 1.0
O A:SER358 2.5 33.7 1.0
CG A:ASP361 2.8 26.9 1.0
C A:ASP401 3.5 27.7 1.0
CG A:ASP362 3.5 21.2 1.0
CB A:THR356 3.5 22.9 1.0
C A:SER358 3.7 30.4 1.0
CG2 A:THR356 3.8 19.7 1.0
OD2 A:ASP362 3.9 24.1 1.0
OD1 A:ASP401 4.3 33.0 1.0
CA A:ASP401 4.3 25.1 1.0
CB A:ASP361 4.4 23.9 1.0
N A:ASN402 4.4 27.9 1.0
N A:SER358 4.4 32.0 1.0
CA A:ASP359 4.5 25.7 1.0
N A:ASP362 4.5 21.9 1.0
CA A:ASN402 4.5 26.7 1.0
N A:ASP359 4.5 29.6 1.0
CA A:SER358 4.6 30.0 1.0
CG A:ASP401 4.8 33.3 1.0
O A:TRP400 4.8 22.7 1.0
CB A:ASP362 4.8 22.5 1.0
CA A:THR356 4.8 27.3 1.0
N A:ASP361 4.9 29.5 1.0
CB A:SER358 4.9 28.4 1.0
N A:VAL403 5.0 26.7 1.0

Calcium binding site 3 out of 3 in 1clc

Go back to Calcium Binding Sites List in 1clc
Calcium binding site 3 out of 3 in the Three-Dimensional Structure of Endoglucanase D at 1.9 Angstroms Resolution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Three-Dimensional Structure of Endoglucanase D at 1.9 Angstroms Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca652

b:33.0
occ:1.00
O A:ILE525 2.2 30.5 1.0
O A:SER520 2.3 28.2 1.0
O A:HOH856 2.3 35.5 1.0
O A:HOH668 2.4 29.2 1.0
OD1 A:ASP523 2.4 32.0 1.0
O A:HOH686 2.4 29.5 1.0
C A:SER520 3.4 28.8 1.0
C A:ILE525 3.4 29.2 1.0
CG A:ASP523 3.4 31.6 1.0
OD2 A:ASP523 3.8 34.3 1.0
CA A:SER520 4.0 26.9 1.0
N A:ILE525 4.0 33.9 1.0
CA A:ILE525 4.1 30.1 1.0
O A:GLU527 4.2 24.7 1.0
O A:ASP523 4.2 41.9 1.0
O A:HOH822 4.3 47.4 1.0
O A:TRP526 4.3 24.4 1.0
O A:HOH710 4.5 33.8 1.0
N A:TRP526 4.5 25.9 1.0
CB A:ILE525 4.5 30.7 1.0
C A:TRP526 4.5 23.5 1.0
O A:HOH968 4.5 63.6 1.0
N A:GLY521 4.5 31.7 1.0
O A:HOH865 4.5 56.6 1.0
C A:ASP523 4.6 35.0 1.0
O A:HOH1008 4.6 78.2 1.0
CB A:SER520 4.6 23.7 1.0
N A:ASP523 4.6 28.3 1.0
CA A:TRP526 4.7 23.4 1.0
CB A:ASP523 4.8 27.8 1.0
C A:GLU527 4.8 24.8 1.0
CA A:GLY521 4.8 28.9 1.0
O A:ARG519 4.9 26.9 1.0
CA A:ASP523 4.9 28.7 1.0
C A:GLY524 5.0 35.2 1.0
CA A:PRO528 5.0 23.4 1.0

Reference:

M.B.Lascombe, H.Souchon, M.Juy, P.M.Alzari. Three-Dimensional Structure of Endoglucanase D at 1.9 Angstroms Resolution To Be Published.
Page generated: Thu Jul 11 07:03:34 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