Atomistry » Calcium » PDB 3v0a-3vl2 » 3v96
Atomistry »
  Calcium »
    PDB 3v0a-3vl2 »
      3v96 »

Calcium in PDB 3v96: Complex of Matrix Metalloproteinase-10 Catalytic Domain (Mmp-10CD) with Tissue Inhibitor of Metalloproteinases-1 (Timp-1)

Enzymatic activity of Complex of Matrix Metalloproteinase-10 Catalytic Domain (Mmp-10CD) with Tissue Inhibitor of Metalloproteinases-1 (Timp-1)

All present enzymatic activity of Complex of Matrix Metalloproteinase-10 Catalytic Domain (Mmp-10CD) with Tissue Inhibitor of Metalloproteinases-1 (Timp-1):
3.4.24.22;

Protein crystallography data

The structure of Complex of Matrix Metalloproteinase-10 Catalytic Domain (Mmp-10CD) with Tissue Inhibitor of Metalloproteinases-1 (Timp-1), PDB code: 3v96 was solved by J.Batra, A.S.Soares, E.S.Radisky, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 35.00 / 1.90
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 231.720, 37.682, 39.523, 90.00, 90.00, 90.00
R / Rfree (%) 21.5 / 26.6

Other elements in 3v96:

The structure of Complex of Matrix Metalloproteinase-10 Catalytic Domain (Mmp-10CD) with Tissue Inhibitor of Metalloproteinases-1 (Timp-1) also contains other interesting chemical elements:

Zinc (Zn) 2 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the Complex of Matrix Metalloproteinase-10 Catalytic Domain (Mmp-10CD) with Tissue Inhibitor of Metalloproteinases-1 (Timp-1) (pdb code 3v96). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 3 binding sites of Calcium where determined in the Complex of Matrix Metalloproteinase-10 Catalytic Domain (Mmp-10CD) with Tissue Inhibitor of Metalloproteinases-1 (Timp-1), PDB code: 3v96:
Jump to Calcium binding site number: 1; 2; 3;

Calcium binding site 1 out of 3 in 3v96

Go back to Calcium Binding Sites List in 3v96
Calcium binding site 1 out of 3 in the Complex of Matrix Metalloproteinase-10 Catalytic Domain (Mmp-10CD) with Tissue Inhibitor of Metalloproteinases-1 (Timp-1)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Complex of Matrix Metalloproteinase-10 Catalytic Domain (Mmp-10CD) with Tissue Inhibitor of Metalloproteinases-1 (Timp-1) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca303

b:33.9
occ:1.00
 O B:SER179 2.2 27.9 1.0
OE2 B:GLU200 2.3 36.7 1.0
O B:GLY175 2.3 39.0 1.0
OD2 B:ASP174 2.4 37.1 1.0
O B:GLY177 2.4 31.6 1.0
OD2 B:ASP197 2.5 36.2 1.0
CG B:ASP197 3.3 39.3 1.0
C B:SER179 3.4 25.8 1.0
CD B:GLU200 3.5 34.1 1.0
C B:GLY175 3.5 39.9 1.0
C B:GLY177 3.6 32.8 1.0
CG B:ASP174 3.6 36.2 1.0
N B:GLY177 3.8 35.6 1.0
CB B:ASP197 3.9 35.7 1.0
N B:GLY175 4.0 40.1 1.0
N B:SER179 4.0 26.6 1.0
OE1 B:GLU200 4.1 34.8 1.0
C B:PRO176 4.1 37.4 1.0
C B:ASP174 4.2 40.1 1.0
CA B:SER179 4.2 25.1 0.5
CA B:SER179 4.2 25.4 0.5
OD1 B:ASP197 4.2 40.7 1.0
OD1 B:ASP174 4.3 34.6 1.0
CA B:GLY177 4.3 34.3 1.0
N B:LEU180 4.3 25.5 1.0
N B:ASP174 4.3 37.6 1.0
OG B:SER179 4.3 24.9 0.5
CA B:GLY175 4.4 41.1 1.0
N B:PRO176 4.4 40.4 1.0
CA B:PRO176 4.4 39.3 1.0
CA B:LEU180 4.5 27.0 1.0
C B:HIS178 4.5 28.4 1.0
CG B:GLU200 4.6 35.6 1.0
O B:ASP174 4.6 39.8 1.0
O B:PRO176 4.6 38.1 1.0
N B:HIS178 4.6 31.0 1.0
CA B:ASP174 4.7 39.1 1.0
CB B:ASP174 4.7 37.2 1.0
CB B:HIS178 4.8 32.1 1.0
CD2 B:LEU180 4.9 25.4 1.0
CA B:HIS178 4.9 29.4 1.0
CB B:SER179 4.9 25.6 0.5
CB B:SER179 5.0 25.6 0.5

Calcium binding site 2 out of 3 in 3v96

Go back to Calcium Binding Sites List in 3v96
Calcium binding site 2 out of 3 in the Complex of Matrix Metalloproteinase-10 Catalytic Domain (Mmp-10CD) with Tissue Inhibitor of Metalloproteinases-1 (Timp-1)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Complex of Matrix Metalloproteinase-10 Catalytic Domain (Mmp-10CD) with Tissue Inhibitor of Metalloproteinases-1 (Timp-1) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca304

b:49.2
occ:1.00
 O B:HOH449 2.2 53.3 1.0
O B:ASP157 2.3 48.9 1.0
O B:HOH447 2.3 56.1 1.0
O B:GLY189 2.4 52.2 1.0
O B:TYR191 2.5 43.2 1.0
OD1 B:ASP193 2.6 45.4 1.0
CG B:ASP193 3.4 42.8 1.0
C B:ASP157 3.5 48.8 1.0
C B:TYR191 3.6 42.2 1.0
C B:GLY189 3.6 54.0 1.0
OD2 B:ASP193 3.7 48.1 1.0
O B:LEU190 3.9 46.7 1.0
O B:ALA156 3.9 56.4 1.0
C B:LEU190 4.0 47.9 1.0
N B:ASP193 4.2 37.5 1.0
CA B:ASP157 4.2 51.3 1.0
CA B:GLY192 4.3 37.1 1.0
N B:TYR191 4.3 47.2 1.0
OE1 B:GLU155 4.4 70.4 1.0
O B:GLY187 4.4 44.7 1.0
N B:GLY192 4.4 38.7 1.0
C B:GLY192 4.4 36.5 1.0
N B:ILE158 4.5 47.9 1.0
O B:HOH437 4.5 57.5 1.0
N B:LEU190 4.5 54.5 1.0
CA B:LEU190 4.6 52.0 1.0
CA B:GLY189 4.6 57.5 1.0
CA B:TYR191 4.6 44.3 1.0
CB B:ASP193 4.6 41.1 1.0
N B:GLY189 4.6 55.4 1.0
N B:MET159 4.6 47.4 1.0
C B:PRO188 4.7 52.7 1.0
CG B:MET159 4.7 57.3 1.0
CA B:ASP193 4.8 37.7 1.0
CA B:ILE158 4.8 44.3 1.0
C B:ALA156 4.9 57.4 1.0
O B:HOH427 4.9 60.5 1.0
O B:PRO188 5.0 48.5 1.0

Calcium binding site 3 out of 3 in 3v96

Go back to Calcium Binding Sites List in 3v96
Calcium binding site 3 out of 3 in the Complex of Matrix Metalloproteinase-10 Catalytic Domain (Mmp-10CD) with Tissue Inhibitor of Metalloproteinases-1 (Timp-1)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Complex of Matrix Metalloproteinase-10 Catalytic Domain (Mmp-10CD) with Tissue Inhibitor of Metalloproteinases-1 (Timp-1) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca305

b:56.4
occ:1.00
 OD1 B:ASP198 2.3 50.2 1.0
O B:GLU200 2.3 45.1 1.0
O B:ASP198 2.3 44.0 1.0
OD2 B:ASP123 2.5 47.8 1.0
C B:ASP198 3.1 43.4 1.0
OD1 B:ASP123 3.1 55.7 1.0
CG B:ASP123 3.2 48.6 1.0
CG B:ASP198 3.2 49.3 1.0
C B:GLU200 3.5 43.0 1.0
CA B:ASP198 3.5 42.8 1.0
CB B:ASP198 3.8 45.5 1.0
OG1 B:THR121 4.0 51.5 1.0
OD2 B:ASP198 4.2 59.5 1.0
N B:GLU200 4.2 39.8 1.0
CD1 B:TRP202 4.2 43.5 1.0
N B:ASP199 4.2 43.1 1.0
CA B:LYS201 4.2 46.3 1.0
N B:LYS201 4.3 44.3 1.0
C B:ASP199 4.4 42.1 1.0
CA B:GLU200 4.5 40.2 1.0
CA B:ASP199 4.5 43.6 1.0
CB B:ASP123 4.6 52.1 1.0
NE1 B:TRP202 4.6 41.4 1.0
N B:TRP202 4.8 45.3 1.0
O B:ASP197 4.8 38.5 1.0
N B:ASP198 4.9 40.2 1.0
O B:HOH439 5.0 66.6 1.0
O B:ASP199 5.0 42.1 1.0

Reference:

J.Batra, J.Robinson, A.S.Soares, A.P.Fields, D.C.Radisky, E.S.Radisky. Matrix Metalloproteinase-10 (Mmp-10) Interaction with Tissue Inhibitors of Metalloproteinases Timp-1 and Timp-2: Binding Studies and Crystal Structure. J.Biol.Chem. V. 287 15935 2012.
ISSN: ISSN 0021-9258
PubMed: 22427646
DOI: 10.1074/JBC.M112.341156
Page generated: Sat Jul 13 20:36:24 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