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Calcium in PDB 1l9m: Three-Dimensional Structure of the Human Transglutaminase 3 Enzyme: Binding of Calcium Ions Change Structure For Activation

Enzymatic activity of Three-Dimensional Structure of the Human Transglutaminase 3 Enzyme: Binding of Calcium Ions Change Structure For Activation

All present enzymatic activity of Three-Dimensional Structure of the Human Transglutaminase 3 Enzyme: Binding of Calcium Ions Change Structure For Activation:
2.3.2.13;

Protein crystallography data

The structure of Three-Dimensional Structure of the Human Transglutaminase 3 Enzyme: Binding of Calcium Ions Change Structure For Activation, PDB code: 1l9m 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 / 2.10
Space group P 1
Cell size a, b, c (Å), α, β, γ (°) 57.709, 67.515, 116.208, 97.24, 90.15, 98.67
R / Rfree (%) 18.2 / 22.5

Other elements in 1l9m:

The structure of Three-Dimensional Structure of the Human Transglutaminase 3 Enzyme: Binding of Calcium Ions Change Structure For Activation also contains other interesting chemical elements:

Bromine (Br) 2 atoms
Chlorine (Cl) 2 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the Three-Dimensional Structure of the Human Transglutaminase 3 Enzyme: Binding of Calcium Ions Change Structure For Activation (pdb code 1l9m). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Three-Dimensional Structure of the Human Transglutaminase 3 Enzyme: Binding of Calcium Ions Change Structure For Activation, PDB code: 1l9m:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in 1l9m

Go back to Calcium Binding Sites List in 1l9m
Calcium binding site 1 out of 2 in the Three-Dimensional Structure of the Human Transglutaminase 3 Enzyme: Binding of Calcium Ions Change Structure For Activation


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 the Human Transglutaminase 3 Enzyme: Binding of Calcium Ions Change Structure For Activation within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca702

b:37.2
occ:1.00
 OD1 A:ASN224 2.4 22.7 1.0
O A:HOH977 2.4 13.9 1.0
O A:ALA221 2.5 18.9 1.0
O A:ASN224 2.5 24.5 1.0
O A:ASN226 2.6 25.4 1.0
O A:ASN229 2.8 27.2 1.0
CG A:ASN224 3.3 22.8 1.0
C A:ASN224 3.3 23.8 1.0
O A:HOH784 3.3 22.1 1.0
N A:ASN226 3.4 26.1 1.0
C A:ASN226 3.5 26.9 1.0
C A:ALA221 3.7 18.8 1.0
C A:ASN229 3.8 28.1 1.0
C A:SER225 3.8 25.7 1.0
CA A:ASN226 3.9 26.5 1.0
ND2 A:ASN224 4.0 22.4 1.0
N A:SER225 4.0 24.5 1.0
CA A:SER225 4.1 25.1 1.0
CA A:GLY230 4.2 24.5 1.0
CA A:ASN224 4.2 22.6 1.0
CB A:ASN226 4.3 26.1 1.0
CB A:ASN224 4.3 22.4 1.0
N A:ASN224 4.4 21.2 1.0
N A:GLY230 4.4 26.3 1.0
OD2 A:ASP227 4.4 28.6 1.0
CA A:MET222 4.4 18.1 1.0
O A:SER225 4.4 26.1 1.0
N A:MET222 4.5 18.4 1.0
CB A:ASP227 4.6 29.2 1.0
N A:ASP227 4.6 27.9 1.0
CA A:ALA221 4.7 19.3 1.0
C A:MET222 4.7 18.9 1.0
N A:ASN229 4.8 30.3 1.0
CA A:ASN229 4.8 29.1 1.0
O A:PHE364 4.8 25.7 1.0
CG A:ASP227 5.0 29.3 1.0

Calcium binding site 2 out of 2 in 1l9m

Go back to Calcium Binding Sites List in 1l9m
Calcium binding site 2 out of 2 in the Three-Dimensional Structure of the Human Transglutaminase 3 Enzyme: Binding of Calcium Ions Change Structure For Activation


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 the Human Transglutaminase 3 Enzyme: Binding of Calcium Ions Change Structure For Activation within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca705

b:25.3
occ:1.00
 OD1 B:ASN224 2.3 14.0 1.0
O B:ASN224 2.4 14.9 1.0
O B:HOH1001 2.4 9.7 1.0
O B:ALA221 2.4 14.5 1.0
O B:ASN226 2.6 15.6 1.0
O B:ASN229 2.6 18.5 1.0
C B:ASN224 3.2 15.1 1.0
CG B:ASN224 3.2 14.3 1.0
N B:ASN226 3.3 16.7 1.0
C B:ASN226 3.5 17.1 1.0
O B:HOH784 3.6 11.5 1.0
C B:ALA221 3.6 15.3 1.0
C B:ASN229 3.7 19.2 1.0
C B:SER225 3.7 16.5 1.0
CA B:ASN226 3.9 16.6 1.0
N B:SER225 3.9 16.1 1.0
ND2 B:ASN224 3.9 14.1 1.0
CA B:SER225 4.0 16.3 1.0
CA B:ASN224 4.1 14.4 1.0
CA B:GLY230 4.1 17.3 1.0
CB B:ASN224 4.2 12.8 1.0
CB B:ASN226 4.2 17.1 1.0
N B:ASN224 4.3 14.6 1.0
N B:GLY230 4.3 18.3 1.0
O B:SER225 4.4 16.5 1.0
CA B:MET222 4.4 16.3 1.0
N B:MET222 4.4 15.7 1.0
OD2 B:ASP227 4.6 22.2 1.0
CA B:ALA221 4.6 15.4 1.0
C B:MET222 4.7 16.7 1.0
N B:ASP227 4.7 18.4 1.0
N B:ASN229 4.7 21.2 1.0
CA B:ASN229 4.7 20.2 1.0
O B:PHE364 4.7 18.9 1.0
CB B:ASP227 4.8 19.9 1.0
O B:MET222 4.9 16.7 1.0

Reference:

B.Ahvazi, H.C.Kim, S.H.Kee, Z.Nemes, P.M.Steinert. Three-Dimensional Structure of the Human Transglutaminase 3 Enzyme: Binding of Calcium Ions Changes Structure For Activation. Embo J. V. 21 2055 2002.
ISSN: ISSN 0261-4189
PubMed: 11980702
DOI: 10.1093/EMBOJ/21.9.2055
Page generated: Mon Jul 7 16:47:57 2025

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