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Potassium in PDB 3iis: Structure of the Reconstituted Peridinin-Chlorophyll A-Protein (Rfpcp)

Protein crystallography data

The structure of Structure of the Reconstituted Peridinin-Chlorophyll A-Protein (Rfpcp), PDB code: 3iis was solved by T.Schulte, E.Hofmann, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 35.85 / 1.40
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 68.690, 81.623, 75.080, 90.00, 90.00, 90.00
R / Rfree (%) 15.2 / 18.7

Other elements in 3iis:

The structure of Structure of the Reconstituted Peridinin-Chlorophyll A-Protein (Rfpcp) also contains other interesting chemical elements:

Cadmium (Cd) 5 atoms
Magnesium (Mg) 1 atom
Chlorine (Cl) 7 atoms

Potassium Binding Sites:

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

Potassium binding site 1 out of 4 in 3iis

Go back to Potassium Binding Sites List in 3iis
Potassium binding site 1 out of 4 in the Structure of the Reconstituted Peridinin-Chlorophyll A-Protein (Rfpcp)


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Structure of the Reconstituted Peridinin-Chlorophyll A-Protein (Rfpcp) within 5.0Å range:
probe atom residue distance (Å) B Occ
M:K155

b:11.4
occ:0.80
 CL M:CL162 1.9 15.4 0.6
O M:HOH284 2.1 32.1 1.0
OE1 M:GLU39 2.3 20.5 0.8
O M:HOH282 2.5 15.3 0.6
O M:HOH286 2.6 35.9 1.0
CL M:CL162 2.6 4.2 0.2
O M:HOH287 2.7 39.5 1.0
OE2 M:GLU39 2.8 24.6 0.8
CD M:GLU39 2.9 20.7 0.8
O M:HOH270 3.7 38.6 1.0
CG M:GLU39 3.7 2.8 0.2
OE2 M:GLU39 4.2 7.6 0.2
CB M:GLN36 4.4 9.9 1.0
CG M:GLU39 4.4 15.3 0.8
CB M:LEU38 4.4 9.6 1.0
CD M:GLU39 4.5 4.7 0.2
O M:HOH283 4.6 25.1 0.5
N M:GLU39 4.6 6.9 0.2
N M:GLU39 4.7 7.8 0.8
CD1 M:LEU38 4.7 12.1 1.0
CB M:GLU39 4.7 5.7 0.2
O M:HOH362 4.8 37.9 1.0
CA M:GLN36 4.8 7.8 1.0
CG M:GLN36 4.8 10.0 1.0
CG M:LEU38 4.9 11.0 1.0
N M:LEU38 4.9 7.0 1.0
OE1 M:GLN36 4.9 15.9 1.0
C M:GLN36 5.0 7.3 1.0

Potassium binding site 2 out of 4 in 3iis

Go back to Potassium Binding Sites List in 3iis
Potassium binding site 2 out of 4 in the Structure of the Reconstituted Peridinin-Chlorophyll A-Protein (Rfpcp)


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Structure of the Reconstituted Peridinin-Chlorophyll A-Protein (Rfpcp) within 5.0Å range:
probe atom residue distance (Å) B Occ
M:K156

b:9.3
occ:0.50
 K M:K156 0.0 9.3 0.5
K M:K156 1.6 20.9 0.5
O M:HOH222 2.5 19.9 1.0
O M:HOH289 2.6 9.9 1.0
NZ M:LYS34 3.7 26.1 0.5
CE M:LYS34 3.7 21.9 0.5
CD M:CD153 3.8 7.6 0.8
K M:K157 3.9 8.1 0.8
CD M:LYS34 3.9 20.1 0.5
O M:HOH221 4.2 13.3 1.0
OD2 M:ASP116 4.5 8.0 1.0
CG M:LYS34 4.7 15.7 0.5
CL M:CL161 4.8 9.7 0.8
O M:HOH288 5.0 32.1 1.0

Potassium binding site 3 out of 4 in 3iis

Go back to Potassium Binding Sites List in 3iis
Potassium binding site 3 out of 4 in the Structure of the Reconstituted Peridinin-Chlorophyll A-Protein (Rfpcp)


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Structure of the Reconstituted Peridinin-Chlorophyll A-Protein (Rfpcp) within 5.0Å range:
probe atom residue distance (Å) B Occ
M:K156

b:20.9
occ:0.50
 K M:K156 0.0 20.9 0.5
K M:K156 1.6 9.3 0.5
CE M:LYS34 2.1 21.9 0.5
NZ M:LYS34 2.5 26.1 0.5
CD M:LYS34 2.6 20.1 0.5
O M:HOH289 2.7 9.9 1.0
O M:HOH222 3.0 19.9 1.0
CG M:LYS34 3.7 15.7 0.5
K M:K157 4.0 8.1 0.8
CB M:LYS34 4.8 12.6 0.5
CD M:CD153 4.8 7.6 0.8
CB M:LYS34 4.9 12.0 0.5
O M:HOH288 4.9 32.1 1.0

Potassium binding site 4 out of 4 in 3iis

Go back to Potassium Binding Sites List in 3iis
Potassium binding site 4 out of 4 in the Structure of the Reconstituted Peridinin-Chlorophyll A-Protein (Rfpcp)


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of Structure of the Reconstituted Peridinin-Chlorophyll A-Protein (Rfpcp) within 5.0Å range:
probe atom residue distance (Å) B Occ
M:K157

b:8.1
occ:0.80
 O M:HOH290 2.6 25.6 1.0
O M:HOH289 2.9 9.9 1.0
CD M:CD153 3.6 7.6 0.8
K M:K156 3.9 9.3 0.5
K M:K156 4.0 20.9 0.5
NZ M:LYS34 4.0 26.1 0.5
CL M:CL160 4.2 21.0 0.8
CL M:CL161 4.9 9.7 0.8
CE M:LYS34 4.9 21.9 0.5

Reference:

T.Schulte, D.M.Niedzwiedzki, R.R.Birge, R.G.Hiller, T.Polivka, E.Hofmann, H.A.Frank. Identification of A Single Peridinin Sensing Chl-A Excitation in Reconstituted Pcp By Crystallography and Spectroscopy. Proc.Natl.Acad.Sci.Usa V. 106 20764 2009.
ISSN: ISSN 0027-8424
PubMed: 19934052
DOI: 10.1073/PNAS.0908938106
Page generated: Mon Aug 12 08:32:39 2024

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