Atomistry » Calcium » PDB 1nmb-1nxc » 1nug
Atomistry »
  Calcium »
    PDB 1nmb-1nxc »
      1nug »

Calcium in PDB 1nug: Role of Calcium Ions in the Activation and Activity of the Transglutaminase 3 Enzyme (2 Calciums, 1 Mg, Inactive Form)

Enzymatic activity of Role of Calcium Ions in the Activation and Activity of the Transglutaminase 3 Enzyme (2 Calciums, 1 Mg, Inactive Form)

All present enzymatic activity of Role of Calcium Ions in the Activation and Activity of the Transglutaminase 3 Enzyme (2 Calciums, 1 Mg, Inactive Form):
2.3.2.13;

Protein crystallography data

The structure of Role of Calcium Ions in the Activation and Activity of the Transglutaminase 3 Enzyme (2 Calciums, 1 Mg, Inactive Form), PDB code: 1nug was solved by B.Ahvazi, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 2.40
Space group P 1
Cell size a, b, c (Å), α, β, γ (°) 57.510, 66.810, 116.530, 97.24, 90.28, 98.36
R / Rfree (%) 19.4 / 24.8

Other elements in 1nug:

The structure of Role of Calcium Ions in the Activation and Activity of the Transglutaminase 3 Enzyme (2 Calciums, 1 Mg, Inactive Form) also contains other interesting chemical elements:

Magnesium (Mg) 2 atoms
Chlorine (Cl) 4 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the Role of Calcium Ions in the Activation and Activity of the Transglutaminase 3 Enzyme (2 Calciums, 1 Mg, Inactive Form) (pdb code 1nug). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the Role of Calcium Ions in the Activation and Activity of the Transglutaminase 3 Enzyme (2 Calciums, 1 Mg, Inactive Form), PDB code: 1nug:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in 1nug

Go back to Calcium Binding Sites List in 1nug
Calcium binding site 1 out of 4 in the Role of Calcium Ions in the Activation and Activity of the Transglutaminase 3 Enzyme (2 Calciums, 1 Mg, Inactive Form)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Role of Calcium Ions in the Activation and Activity of the Transglutaminase 3 Enzyme (2 Calciums, 1 Mg, Inactive Form) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca703

b:20.0
occ:1.00
 OD1 A:ASN224 2.3 18.9 1.0
O A:ALA221 2.3 14.8 1.0
O A:ASN226 2.4 21.0 1.0
O A:ASN224 2.4 18.3 1.0
OD1 A:ASP228 2.5 23.4 1.0
O A:HOH957 2.5 20.2 1.0
OD2 A:ASP228 2.8 23.8 1.0
CG A:ASP228 2.9 23.6 1.0
CG A:ASN224 3.3 18.9 1.0
C A:ALA221 3.4 15.1 1.0
C A:ASN224 3.4 18.6 1.0
C A:ASN226 3.5 20.9 1.0
N A:ASN226 3.6 20.4 1.0
CA A:ASN226 4.0 20.6 1.0
ND2 A:ASN224 4.0 18.8 1.0
C A:SER225 4.1 20.1 1.0
CA A:ALA221 4.2 14.9 1.0
N A:MET222 4.2 15.3 1.0
N A:ASP228 4.2 23.2 1.0
CA A:ASN224 4.3 18.3 1.0
N A:SER225 4.3 19.1 1.0
CA A:MET222 4.3 15.8 1.0
N A:ASN224 4.3 17.5 1.0
CB A:ASN226 4.3 20.3 1.0
CB A:ASP228 4.3 23.6 1.0
CB A:ASN224 4.3 18.4 1.0
CA A:SER225 4.4 19.8 1.0
O A:PHE364 4.5 22.6 1.0
CA A:GLY230 4.5 22.7 1.0
N A:GLY230 4.6 23.6 1.0
OD2 A:ASP227 4.6 22.7 1.0
CB A:ALA221 4.6 14.6 1.0
N A:ASP227 4.6 21.6 1.0
O A:SER225 4.7 20.6 1.0
C A:MET222 4.7 16.2 1.0
CA A:ASP228 4.8 23.6 1.0
CB A:ASP227 4.8 22.5 1.0

Calcium binding site 2 out of 4 in 1nug

Go back to Calcium Binding Sites List in 1nug
Calcium binding site 2 out of 4 in the Role of Calcium Ions in the Activation and Activity of the Transglutaminase 3 Enzyme (2 Calciums, 1 Mg, Inactive Form)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Role of Calcium Ions in the Activation and Activity of the Transglutaminase 3 Enzyme (2 Calciums, 1 Mg, Inactive Form) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca704

b:29.5
occ:1.00
 O A:SER415 2.3 27.0 1.0
O A:HOH1027 2.5 19.8 1.0
OD1 A:ASN393 2.6 23.9 1.0
O A:HOH851 2.7 14.4 1.0
OE1 A:GLU443 2.7 34.1 1.0
OE2 A:GLU443 2.8 33.6 1.0
OE2 A:GLU448 2.8 36.1 1.0
CD A:GLU443 3.1 33.8 1.0
CG A:ASN393 3.4 23.6 1.0
C A:SER415 3.5 27.1 1.0
CD A:GLU448 3.6 36.4 1.0
NH1 A:ARG449 3.7 36.0 1.0
ND2 A:ASN393 3.8 23.9 1.0
CA A:HIS416 4.1 27.1 1.0
OE1 A:GLU448 4.2 36.4 1.0
N A:HIS416 4.3 27.0 1.0
CG A:GLU448 4.4 36.5 1.0
O A:HOH870 4.5 14.6 1.0
O A:ASN393 4.5 22.4 1.0
NZ A:LYS440 4.5 21.3 1.0
CA A:SER415 4.5 27.2 1.0
CB A:ASN393 4.6 22.8 1.0
CA A:ASN393 4.7 22.1 1.0
CG A:GLU443 4.7 33.6 1.0
OD1 A:ASP395 4.7 24.4 1.0
C A:ASN393 4.7 22.2 1.0
CB A:SER415 4.7 27.2 1.0
CG A:HIS416 4.9 30.4 1.0
CD2 A:HIS416 4.9 31.1 1.0
CZ A:ARG449 4.9 36.2 1.0
CB A:HIS416 4.9 28.6 1.0
O A:ILE418 5.0 20.4 1.0
C A:HIS416 5.0 26.1 1.0

Calcium binding site 3 out of 4 in 1nug

Go back to Calcium Binding Sites List in 1nug
Calcium binding site 3 out of 4 in the Role of Calcium Ions in the Activation and Activity of the Transglutaminase 3 Enzyme (2 Calciums, 1 Mg, Inactive Form)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Role of Calcium Ions in the Activation and Activity of the Transglutaminase 3 Enzyme (2 Calciums, 1 Mg, Inactive Form) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca703

b:21.1
occ:1.00
 O B:ASN226 2.3 17.8 1.0
O B:ASN224 2.4 15.8 1.0
O B:ALA221 2.5 14.6 1.0
OD1 B:ASP228 2.5 21.6 1.0
OD1 B:ASN224 2.5 14.3 1.0
O B:HOH972 2.6 16.5 1.0
OD2 B:ASP228 2.8 21.5 1.0
CG B:ASP228 2.9 21.8 1.0
C B:ASN224 3.4 15.8 1.0
C B:ASN226 3.4 18.1 1.0
C B:ALA221 3.4 14.7 1.0
CG B:ASN224 3.4 14.7 1.0
N B:ASN226 3.6 17.7 1.0
C B:SER225 3.8 17.3 1.0
CA B:ASN226 4.0 17.9 1.0
N B:SER225 4.2 16.2 1.0
ND2 B:ASN224 4.2 14.3 1.0
N B:ASP228 4.2 21.3 1.0
CA B:SER225 4.2 16.8 1.0
CA B:MET222 4.2 14.5 1.0
N B:MET222 4.2 14.5 1.0
CA B:ASN224 4.3 15.4 1.0
CB B:ASP228 4.3 21.9 1.0
N B:ASN224 4.3 15.3 1.0
O B:SER225 4.3 17.5 1.0
CA B:GLY230 4.3 21.9 1.0
CA B:ALA221 4.4 14.9 1.0
CB B:ASN224 4.4 15.0 1.0
N B:GLY230 4.5 23.2 1.0
CB B:ASN226 4.5 17.6 1.0
N B:ASP227 4.6 18.9 1.0
C B:MET222 4.6 15.0 1.0
O B:PHE364 4.7 19.6 1.0
CB B:ASP227 4.7 19.4 1.0
CA B:ASP228 4.8 21.9 1.0
CB B:ALA221 4.8 14.6 1.0
OD1 B:ASP227 4.8 19.2 1.0
O B:MET222 4.9 15.2 1.0
C B:ASP227 4.9 20.5 1.0
CA B:ASP227 5.0 19.6 1.0

Calcium binding site 4 out of 4 in 1nug

Go back to Calcium Binding Sites List in 1nug
Calcium binding site 4 out of 4 in the Role of Calcium Ions in the Activation and Activity of the Transglutaminase 3 Enzyme (2 Calciums, 1 Mg, Inactive Form)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Role of Calcium Ions in the Activation and Activity of the Transglutaminase 3 Enzyme (2 Calciums, 1 Mg, Inactive Form) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca704

b:36.4
occ:1.00
 O B:HOH978 2.2 34.9 1.0
OE2 B:GLU443 2.4 32.8 1.0
O B:SER415 2.4 28.6 1.0
OD1 B:ASN393 2.4 24.2 1.0
OE1 B:GLU443 2.7 33.0 1.0
O B:HOH805 2.8 29.2 1.0
OE2 B:GLU448 2.9 42.0 1.0
CD B:GLU443 2.9 32.8 1.0
CG B:ASN393 3.4 24.1 1.0
C B:SER415 3.6 28.4 1.0
CD B:GLU448 3.6 41.7 1.0
ND2 B:ASN393 4.0 24.0 1.0
CA B:HIS416 4.1 28.1 1.0
OE1 B:GLU448 4.1 42.1 1.0
NH1 B:ARG449 4.2 40.9 1.0
N B:HIS416 4.3 28.3 1.0
CG B:GLU443 4.4 32.9 1.0
NZ B:LYS440 4.4 22.5 1.0
ND1 B:HIS416 4.5 31.0 1.0
CG B:GLU448 4.5 41.0 1.0
CE B:LYS440 4.5 23.4 1.0
O B:HOH927 4.6 7.0 1.0
O B:ASN393 4.6 23.8 1.0
CB B:ASN393 4.6 23.6 1.0
CA B:ASN393 4.6 23.3 1.0
CA B:SER415 4.6 28.4 1.0
C B:ASN393 4.7 23.4 1.0
O B:ILE418 4.8 23.1 1.0
OD1 B:ASP395 4.8 25.2 1.0
C B:HIS416 4.9 27.2 1.0
CB B:SER415 5.0 28.6 1.0

Reference:

B.Ahvazi, K.M.Boeshans, W.Idler, U.Baxa, P.M.Steinert. Roles of Calcium Ions in the Activation and Activity of the Transglutaminase 3 Enzyme J.Biol.Chem. V. 278 23834 2003.
ISSN: ISSN 0021-9258
PubMed: 12679341
DOI: 10.1074/JBC.M301162200
Page generated: Sat Dec 12 03:09:36 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