Atomistry » Calcium » PDB 1jf5-1jv2 » 1jiz
Atomistry »
  Calcium »
    PDB 1jf5-1jv2 »
      1jiz »

Calcium in PDB 1jiz: Crystal Structure Analysis of Human Macrophage Elastase Mmp- 12

Enzymatic activity of Crystal Structure Analysis of Human Macrophage Elastase Mmp- 12

All present enzymatic activity of Crystal Structure Analysis of Human Macrophage Elastase Mmp- 12:
3.4.24.65;

Protein crystallography data

The structure of Crystal Structure Analysis of Human Macrophage Elastase Mmp- 12, PDB code: 1jiz was solved by H.Nar, K.Werle, M.M.T.Bauer, H.Dollinger, B.Jung, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.83 / 2.60
Space group I 2 2 2
Cell size a, b, c (Å), α, β, γ (°) 67.400, 87.200, 169.200, 90.00, 90.00, 90.00
R / Rfree (%) n/a / n/a

Other elements in 1jiz:

The structure of Crystal Structure Analysis of Human Macrophage Elastase Mmp- 12 also contains other interesting chemical elements:

Zinc (Zn) 4 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the Crystal Structure Analysis of Human Macrophage Elastase Mmp- 12 (pdb code 1jiz). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 6 binding sites of Calcium where determined in the Crystal Structure Analysis of Human Macrophage Elastase Mmp- 12, PDB code: 1jiz:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6;

Calcium binding site 1 out of 6 in 1jiz

Go back to Calcium Binding Sites List in 1jiz
Calcium binding site 1 out of 6 in the Crystal Structure Analysis of Human Macrophage Elastase Mmp- 12


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure Analysis of Human Macrophage Elastase Mmp- 12 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca259

b:24.4
occ:1.00
 O A:GLY77 2.3 21.9 1.0
O A:GLY79 2.3 22.6 1.0
O A:ILE81 2.3 21.8 1.0
OD2 A:ASP99 2.3 22.1 1.0
OE2 A:GLU102 2.3 23.6 1.0
OD2 A:ASP76 2.4 21.3 1.0
CG A:ASP99 3.3 21.1 1.0
C A:GLY77 3.4 22.0 1.0
C A:ILE81 3.4 21.6 1.0
CG A:ASP76 3.5 21.6 1.0
C A:GLY79 3.5 21.9 1.0
CD A:GLU102 3.5 23.0 1.0
N A:ILE81 3.8 21.2 1.0
N A:GLY79 3.8 22.1 1.0
N A:GLY77 3.9 20.5 1.0
CB A:ASP99 4.0 20.9 1.0
CA A:ILE81 4.1 21.4 1.0
OD1 A:ASP76 4.1 22.2 1.0
C A:ASP76 4.1 19.9 1.0
C A:LYS78 4.2 22.4 1.0
N A:ASP76 4.2 18.9 1.0
C A:GLY80 4.2 21.8 1.0
OD1 A:ASP99 4.2 19.7 1.0
CA A:GLY79 4.3 21.8 1.0
CG A:GLU102 4.3 23.1 1.0
N A:LYS78 4.3 22.6 1.0
CA A:LYS78 4.3 22.6 1.0
CA A:GLY77 4.3 21.3 1.0
OE1 A:GLU102 4.4 23.0 1.0
CB A:ILE81 4.4 21.4 1.0
CA A:ASP76 4.5 19.7 1.0
O A:HOH619 4.5 26.0 1.0
N A:GLY80 4.5 22.0 1.0
N A:LEU82 4.5 20.7 1.0
CB A:ASP76 4.6 20.4 1.0
O A:ASP76 4.6 19.1 1.0
CA A:GLY80 4.6 21.9 1.0
O A:GLY80 4.7 22.0 1.0
O A:LYS78 4.8 22.0 1.0
CA A:LEU82 4.9 20.4 1.0

Calcium binding site 2 out of 6 in 1jiz

Go back to Calcium Binding Sites List in 1jiz
Calcium binding site 2 out of 6 in the Crystal Structure Analysis of Human Macrophage Elastase Mmp- 12


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Crystal Structure Analysis of Human Macrophage Elastase Mmp- 12 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca260

b:54.6
occ:1.00
 O A:GLY93 2.4 20.1 1.0
O A:ASP59 2.4 22.9 1.0
O A:GLY91 2.5 19.1 1.0
O A:HOH857 2.5 32.2 1.0
OD1 A:ASP95 2.5 20.5 1.0
O A:HOH555 2.8 13.8 1.0
CG A:ASP95 3.4 20.1 1.0
C A:GLY93 3.5 19.4 1.0
C A:ASP59 3.5 22.8 1.0
C A:GLY91 3.6 19.8 1.0
C A:ILE92 3.7 18.7 1.0
O A:ILE92 3.8 18.8 1.0
OD2 A:ASP95 3.8 20.6 1.0
N A:GLY93 3.9 18.8 1.0
N A:ASP95 4.2 20.0 1.0
CA A:GLY93 4.2 19.1 1.0
CA A:ILE92 4.3 18.7 1.0
N A:ILE60 4.3 21.3 1.0
O A:ALA58 4.3 25.8 1.0
CA A:ILE60 4.3 19.4 1.0
O A:GLY89 4.4 20.1 1.0
N A:ILE92 4.4 19.5 1.0
N A:GLY94 4.4 19.4 1.0
N A:GLY91 4.5 20.5 1.0
CA A:ASP59 4.5 23.9 1.0
N A:LEU61 4.5 19.0 1.0
O A:HOH569 4.5 24.9 1.0
C A:GLY94 4.6 20.1 1.0
CB A:ASP95 4.6 20.0 1.0
CA A:GLY94 4.6 19.5 1.0
CA A:GLY91 4.6 19.9 1.0
CA A:ASP95 4.8 20.0 1.0
C A:ILE60 4.9 19.4 1.0
C A:SER90 4.9 21.0 1.0
O A:HOH720 4.9 33.6 1.0

Calcium binding site 3 out of 6 in 1jiz

Go back to Calcium Binding Sites List in 1jiz
Calcium binding site 3 out of 6 in the Crystal Structure Analysis of Human Macrophage Elastase Mmp- 12


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Crystal Structure Analysis of Human Macrophage Elastase Mmp- 12 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca261

b:74.1
occ:1.00
 OD2 A:ASP25 2.3 30.0 1.0
O A:GLU100 2.3 21.5 1.0
OE1 A:GLU100 2.5 24.4 1.0
O A:HOH722 2.5 36.1 1.0
O A:GLU102 2.5 21.7 1.0
CG A:ASP25 3.2 28.5 1.0
OD1 A:ASP25 3.3 28.6 1.0
O A:HOH855 3.3 29.4 1.0
C A:GLU100 3.4 21.7 1.0
CD A:GLU100 3.5 24.2 1.0
C A:GLU102 3.8 21.9 1.0
CG A:GLU100 3.9 23.6 1.0
OG1 A:THR23 3.9 22.2 1.0
CA A:GLU100 4.0 22.0 1.0
CD1 A:TRP104 4.1 17.7 1.0
N A:GLU102 4.3 22.0 1.0
O A:HOH896 4.3 49.7 1.0
CA A:PHE103 4.3 22.4 1.0
N A:ASP101 4.4 21.4 1.0
C A:ASP101 4.5 21.8 1.0
OE2 A:GLU100 4.5 25.3 1.0
N A:PHE103 4.5 22.2 1.0
CB A:ASP25 4.6 27.6 1.0
CB A:GLU100 4.6 23.2 1.0
NE1 A:TRP104 4.6 16.9 1.0
CA A:ASP101 4.6 21.2 1.0
N A:TRP104 4.7 21.9 1.0
CA A:GLU102 4.8 21.9 1.0
NH1 A:ARG66 5.0 25.4 1.0

Calcium binding site 4 out of 6 in 1jiz

Go back to Calcium Binding Sites List in 1jiz
Calcium binding site 4 out of 6 in the Crystal Structure Analysis of Human Macrophage Elastase Mmp- 12


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Crystal Structure Analysis of Human Macrophage Elastase Mmp- 12 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca259

b:22.9
occ:1.00
 O B:GLY77 2.1 21.3 1.0
O B:GLY79 2.2 22.3 1.0
OE2 B:GLU102 2.2 24.2 1.0
OD2 B:ASP76 2.4 22.2 1.0
OD2 B:ASP99 2.4 20.5 1.0
O B:ILE81 2.5 21.4 1.0
C B:GLY77 3.3 21.8 1.0
C B:GLY79 3.4 21.9 1.0
CD B:GLU102 3.4 23.6 1.0
CG B:ASP99 3.5 19.8 1.0
CG B:ASP76 3.5 22.0 1.0
C B:ILE81 3.5 21.5 1.0
N B:GLY79 3.6 22.3 1.0
N B:ILE81 3.8 21.6 1.0
N B:GLY77 3.9 20.9 1.0
O B:HOH570 4.0 16.9 1.0
C B:LYS78 4.0 22.4 1.0
OD1 B:ASP76 4.1 22.4 1.0
C B:ASP76 4.1 20.3 1.0
CB B:ASP99 4.1 19.5 1.0
CA B:ILE81 4.1 21.5 1.0
CA B:GLY79 4.2 21.9 1.0
C B:GLY80 4.2 21.8 1.0
CA B:LYS78 4.2 22.5 1.0
N B:LYS78 4.2 21.9 1.0
N B:ASP76 4.2 19.7 1.0
CG B:GLU102 4.2 23.1 1.0
CA B:GLY77 4.3 21.4 1.0
OE1 B:GLU102 4.3 24.2 1.0
OD1 B:ASP99 4.4 19.8 1.0
N B:GLY80 4.4 21.9 1.0
CA B:ASP76 4.5 20.2 1.0
CB B:ILE81 4.5 21.0 1.0
O B:ASP76 4.6 20.3 1.0
CB B:ASP76 4.6 21.2 1.0
CA B:GLY80 4.6 21.7 1.0
N B:LEU82 4.6 20.8 1.0
O B:GLY80 4.7 21.5 1.0
O B:LYS78 4.7 22.1 1.0
CA B:LEU82 4.9 20.2 1.0
O B:HOH561 5.0 13.0 1.0

Calcium binding site 5 out of 6 in 1jiz

Go back to Calcium Binding Sites List in 1jiz
Calcium binding site 5 out of 6 in the Crystal Structure Analysis of Human Macrophage Elastase Mmp- 12


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Crystal Structure Analysis of Human Macrophage Elastase Mmp- 12 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca260

b:55.1
occ:1.00
 O B:GLY93 2.3 19.6 1.0
O B:GLY91 2.4 18.5 1.0
O B:ASP59 2.5 22.1 1.0
O B:HOH863 2.6 29.0 1.0
OD1 B:ASP95 2.6 21.1 1.0
O B:HOH572 3.0 6.1 1.0
CG B:ASP95 3.4 21.4 1.0
C B:GLY93 3.4 19.5 1.0
C B:GLY91 3.6 18.9 1.0
C B:ASP59 3.6 22.3 1.0
C B:ILE92 3.7 18.3 1.0
OD2 B:ASP95 3.8 21.3 1.0
O B:HOH759 3.8 30.4 1.0
N B:GLY93 3.8 18.5 1.0
O B:ILE92 3.9 17.9 1.0
CA B:GLY93 4.2 19.0 1.0
N B:ASP95 4.2 19.9 1.0
CA B:ILE92 4.2 18.2 1.0
O B:HOH577 4.2 38.0 1.0
O B:GLY89 4.3 20.9 1.0
O B:ALA58 4.3 25.6 1.0
N B:ILE92 4.4 19.0 1.0
CA B:ILE60 4.4 19.2 1.0
N B:ILE60 4.4 21.2 1.0
N B:GLY91 4.4 19.7 1.0
N B:GLY94 4.4 19.8 1.0
CA B:ASP59 4.5 23.5 1.0
CB B:ASP95 4.6 20.7 1.0
CA B:GLY91 4.6 18.7 1.0
N B:LEU61 4.6 19.1 1.0
C B:GLY94 4.6 20.3 1.0
CA B:GLY94 4.6 20.0 1.0
CA B:ASP95 4.8 19.7 1.0
C B:SER90 4.8 20.5 1.0
C B:ILE60 4.9 19.4 1.0

Calcium binding site 6 out of 6 in 1jiz

Go back to Calcium Binding Sites List in 1jiz
Calcium binding site 6 out of 6 in the Crystal Structure Analysis of Human Macrophage Elastase Mmp- 12


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Crystal Structure Analysis of Human Macrophage Elastase Mmp- 12 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca261

b:70.9
occ:1.00
 OD2 B:ASP25 2.3 29.6 1.0
O B:GLU100 2.4 22.2 1.0
O B:GLU102 2.6 20.9 1.0
OE1 B:GLU100 2.6 25.8 1.0
O B:HOH851 2.6 38.2 1.0
CG B:ASP25 3.1 28.4 1.0
OD1 B:ASP25 3.1 28.3 1.0
C B:GLU100 3.5 21.6 1.0
O B:HOH723 3.6 26.0 1.0
CD B:GLU100 3.6 24.6 1.0
C B:GLU102 3.7 21.7 1.0
CG B:GLU100 4.0 23.1 1.0
OG1 B:THR23 4.0 20.1 1.0
CA B:GLU100 4.1 21.7 1.0
CD1 B:TRP104 4.2 17.8 1.0
CA B:PHE103 4.3 22.9 1.0
N B:GLU102 4.4 21.3 1.0
N B:ASP101 4.5 21.3 1.0
N B:PHE103 4.5 22.1 1.0
C B:ASP101 4.5 21.4 1.0
CB B:ASP25 4.5 27.9 1.0
CA B:ASP101 4.7 21.2 1.0
OE2 B:GLU100 4.7 25.7 1.0
NE1 B:TRP104 4.7 16.7 1.0
N B:TRP104 4.7 22.2 1.0
CB B:GLU100 4.7 22.5 1.0
CA B:GLU102 4.8 21.9 1.0
CD1 B:PHE103 4.9 25.0 1.0
O B:ASP101 5.0 21.3 1.0

Reference:

H.Nar, K.Werle, M.M.Bauer, H.Dollinger, B.Jung. Crystal Structure of Human Macrophage Elastase (Mmp-12) in Complex with A Hydroxamic Acid Inhibitor. J.Mol.Biol. V. 312 743 2001.
ISSN: ISSN 0022-2836
PubMed: 11575929
DOI: 10.1006/JMBI.2001.4953
Page generated: Mon Jul 7 16:09:49 2025

Last articles

Mg in 9JUO
Mg in 9JUM
Mg in 9JUK
Mg in 9J6Y
Mg in 9JSZ
Mg in 9J2F
Mg in 9JSP
Mg in 9JSB
Mg in 9JGM
Mg in 9JPI
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy