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Chlorine in PDB 2x1z: Structure of Peridinin-Chlorophyll-Protein Reconstituted with Chl-D

Protein crystallography data

The structure of Structure of Peridinin-Chlorophyll-Protein Reconstituted with Chl-D, PDB code: 2x1z was solved by T.Schulte, R.G.Hiller, E.Hofmann, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 43.11 / 1.80
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 68.580, 81.990, 75.240, 90.00, 90.00, 90.00
R / Rfree (%) 14.1 / 18.3

Other elements in 2x1z:

The structure of Structure of Peridinin-Chlorophyll-Protein Reconstituted with Chl-D also contains other interesting chemical elements:

Cadmium (Cd) 8 atoms
Magnesium (Mg) 1 atom
Sodium (Na) 2 atoms

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Structure of Peridinin-Chlorophyll-Protein Reconstituted with Chl-D (pdb code 2x1z). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 4 binding sites of Chlorine where determined in the Structure of Peridinin-Chlorophyll-Protein Reconstituted with Chl-D, PDB code: 2x1z:
Jump to Chlorine binding site number: 1; 2; 3; 4;

Chlorine binding site 1 out of 4 in 2x1z

Go back to Chlorine Binding Sites List in 2x1z
Chlorine binding site 1 out of 4 in the Structure of Peridinin-Chlorophyll-Protein Reconstituted with Chl-D


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Structure of Peridinin-Chlorophyll-Protein Reconstituted with Chl-D within 5.0Å range:
probe atom residue distance (Å) B Occ
M:Cl1161

b:10.5
occ:0.90
CD M:CD1172 2.5 8.9 0.9
O M:HOH2020 3.5 27.8 1.0
O M:HOH2007 3.6 10.0 1.0
CB M:ALA0 3.7 8.8 1.0
OD1 M:ASP5 3.8 8.8 1.0
O M:HOH2026 4.2 55.1 1.0
CG M:ASP5 4.7 12.9 1.0
OD2 M:ASP5 4.8 13.0 1.0

Chlorine binding site 2 out of 4 in 2x1z

Go back to Chlorine Binding Sites List in 2x1z
Chlorine binding site 2 out of 4 in the Structure of Peridinin-Chlorophyll-Protein Reconstituted with Chl-D


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Structure of Peridinin-Chlorophyll-Protein Reconstituted with Chl-D within 5.0Å range:
probe atom residue distance (Å) B Occ
M:Cl1162

b:31.7
occ:1.00
CD M:CD1175 2.4 12.7 0.4
CD2 M:LEU38 2.9 14.9 0.5
OE1 M:GLU39 3.3 25.0 1.0
N M:LEU38 3.4 10.4 0.5
CB M:LEU38 3.5 11.9 0.5
N M:LEU38 3.5 10.3 0.5
CD M:PRO37 3.6 10.6 1.0
CG M:LEU38 3.6 13.9 0.5
N M:PRO37 3.6 9.9 1.0
C M:GLN36 3.7 10.3 1.0
O M:HOH2080 3.7 32.8 1.0
CG M:LEU38 3.7 13.3 0.5
CA M:GLN36 3.8 11.6 1.0
CB M:LEU38 4.0 11.9 0.5
CA M:LEU38 4.1 10.8 0.5
CB M:GLN36 4.2 9.8 1.0
CA M:LEU38 4.3 10.6 0.5
O M:GLN36 4.3 10.3 1.0
CD1 M:LEU38 4.4 13.0 0.5
C M:PRO37 4.4 9.8 1.0
CA M:PRO37 4.4 10.0 1.0
CD M:GLU39 4.5 28.5 1.0
N M:GLU39 4.5 10.0 1.0
CG M:PRO37 4.7 14.1 1.0
CD2 M:LEU38 4.8 15.4 0.5
CB M:PRO37 4.8 11.4 1.0
C M:LEU38 4.9 10.2 0.5
OE2 M:GLU39 4.9 32.3 1.0
C M:LEU38 5.0 10.1 0.5

Chlorine binding site 3 out of 4 in 2x1z

Go back to Chlorine Binding Sites List in 2x1z
Chlorine binding site 3 out of 4 in the Structure of Peridinin-Chlorophyll-Protein Reconstituted with Chl-D


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Structure of Peridinin-Chlorophyll-Protein Reconstituted with Chl-D within 5.0Å range:
probe atom residue distance (Å) B Occ
M:Cl1166

b:41.7
occ:1.00
NA M:NA1163 1.8 15.1 1.0
OD1 M:ASP55 3.0 17.3 1.0
O M:HOH2103 3.1 47.6 1.0
OD2 M:ASP55 3.1 22.4 1.0
CG M:ASP55 3.4 15.1 1.0
O M:HOH2102 3.6 27.9 1.0
CB M:LYS57 3.9 14.0 1.0
CD M:PRO56 4.1 11.8 1.0
N M:LYS57 4.3 11.1 1.0
N M:PRO56 4.7 11.6 1.0
CB M:ASP55 4.7 9.8 1.0
CA M:LYS57 4.8 11.9 1.0
CG M:LYS57 5.0 22.9 1.0

Chlorine binding site 4 out of 4 in 2x1z

Go back to Chlorine Binding Sites List in 2x1z
Chlorine binding site 4 out of 4 in the Structure of Peridinin-Chlorophyll-Protein Reconstituted with Chl-D


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Structure of Peridinin-Chlorophyll-Protein Reconstituted with Chl-D within 5.0Å range:
probe atom residue distance (Å) B Occ
M:Cl1167

b:11.0
occ:0.50
CD M:CD1174 1.8 11.0 0.4
CD M:CD1174 2.6 8.2 0.6
OD2 M:ASP116 3.4 9.2 1.0
OD1 M:ASP116 3.7 6.5 1.0
CD M:LYS118 3.8 17.2 1.0
CG M:ASP116 3.8 8.9 1.0
C4 M:PID612 4.0 24.9 1.0
CE M:LYS118 4.1 23.9 1.0
CM3 M:PID612 4.2 21.0 1.0
CG M:LYS118 4.6 14.1 1.0
C3 M:PID612 4.7 29.1 1.0
O2 M:PID612 4.8 32.9 1.0
C5 M:PID612 4.8 24.6 1.0
CB M:LYS118 5.0 11.9 1.0

Reference:

T.Schulte, R.G.Hiller, E.Hofmann. X-Ray Structures of the Peridinin-Chlorophyll-Protein Reconstituted with Different Chlorophylls. Febs Lett. V. 584 973 2010.
ISSN: ISSN 0014-5793
PubMed: 20102711
DOI: 10.1016/J.FEBSLET.2010.01.041
Page generated: Sat Dec 12 09:24:45 2020

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