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Potassium in PDB 2h88: Avian Mitochondrial Respiratory Complex II at 1.8 Angstrom Resolution

Enzymatic activity of Avian Mitochondrial Respiratory Complex II at 1.8 Angstrom Resolution

All present enzymatic activity of Avian Mitochondrial Respiratory Complex II at 1.8 Angstrom Resolution:
1.3.5.1;

Protein crystallography data

The structure of Avian Mitochondrial Respiratory Complex II at 1.8 Angstrom Resolution, PDB code: 2h88 was solved by L.S.Huang, J.T.Shen, A.C.Wang, E.A.Berry, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 45.14 / 1.74
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 119.972, 199.391, 68.063, 90.00, 90.35, 90.00
R / Rfree (%) 17.8 / 20.6

Other elements in 2h88:

The structure of Avian Mitochondrial Respiratory Complex II at 1.8 Angstrom Resolution also contains other interesting chemical elements:

Iron (Fe) 20 atoms

Potassium Binding Sites:

The binding sites of Potassium atom in the Avian Mitochondrial Respiratory Complex II at 1.8 Angstrom Resolution (pdb code 2h88). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 4 binding sites of Potassium where determined in the Avian Mitochondrial Respiratory Complex II at 1.8 Angstrom Resolution, PDB code: 2h88:
Jump to Potassium binding site number: 1; 2; 3; 4;

Potassium binding site 1 out of 4 in 2h88

Go back to Potassium Binding Sites List in 2h88
Potassium binding site 1 out of 4 in the Avian Mitochondrial Respiratory Complex II at 1.8 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Avian Mitochondrial Respiratory Complex II at 1.8 Angstrom Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K622

b:24.9
occ:1.00
 O A:ASN366 2.6 16.2 1.0
O A:GLU397 2.7 15.3 1.0
O A:ALA399 2.7 18.6 1.0
O A:GLY368 2.9 21.7 1.0
O A:MET367 3.1 20.8 1.0
C A:MET367 3.5 22.3 1.0
OH A:TYR365 3.5 22.6 1.0
C A:GLU397 3.6 17.4 1.0
C A:ASN366 3.8 16.4 1.0
C A:GLY368 3.8 22.6 1.0
C A:ALA399 3.9 18.9 1.0
CA A:GLU397 4.0 14.1 1.0
CA A:MET367 4.0 18.5 1.0
O A:HOH1781 4.1 24.9 1.0
O A:HOH1867 4.1 24.1 1.0
CZ A:TYR365 4.1 20.6 1.0
N A:GLY368 4.2 21.6 1.0
CG A:GLU397 4.3 12.6 1.0
CE2 A:TYR365 4.4 19.9 1.0
N A:ALA399 4.4 17.8 1.0
N A:MET367 4.4 16.1 1.0
O A:GLY396 4.4 18.4 1.0
CA A:GLY368 4.5 22.0 1.0
O A:HOH1759 4.5 30.5 1.0
N A:GLY369 4.6 20.0 1.0
N A:ALA398 4.7 16.8 1.0
C A:ALA398 4.7 17.9 1.0
CA A:ALA399 4.7 17.7 1.0
CA A:GLY369 4.8 20.2 1.0
N A:SER400 4.8 18.7 1.0
CB A:GLU397 4.8 13.1 1.0
CA A:SER400 4.8 21.1 1.0
CA A:ASN366 4.9 18.2 1.0
CB A:ASN366 4.9 20.0 1.0

Potassium binding site 2 out of 4 in 2h88

Go back to Potassium Binding Sites List in 2h88
Potassium binding site 2 out of 4 in the Avian Mitochondrial Respiratory Complex II at 1.8 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Avian Mitochondrial Respiratory Complex II at 1.8 Angstrom Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K253

b:38.3
occ:1.00
 O B:ASP193 2.7 21.9 1.0
O B:ASP196 2.9 24.4 1.0
O B:MET191 2.9 25.4 1.0
O B:HOH1735 3.0 45.0 1.0
OG1 B:THR199 3.0 30.7 1.0
O B:HOH1851 3.2 62.2 1.0
O B:HOH1752 3.2 26.6 1.0
C B:ASP193 3.7 20.9 1.0
O B:HOH2534 3.9 46.7 1.0
C B:MET191 4.0 23.6 1.0
C B:ASP196 4.0 25.0 1.0
N B:ASP193 4.2 21.2 1.0
CB B:ASP196 4.3 20.4 1.0
C B:ILE192 4.3 23.9 1.0
O B:TRP190 4.4 22.6 1.0
CA B:SER194 4.4 25.3 1.0
N B:ASP196 4.4 22.3 1.0
N B:SER194 4.4 23.4 1.0
CB B:THR199 4.4 28.0 1.0
CA B:ASP196 4.4 23.7 1.0
CA B:ILE192 4.6 25.2 1.0
CA B:ASP193 4.6 21.4 1.0
C B:SER194 4.7 25.7 1.0
N B:ILE192 4.7 23.2 1.0
O B:ILE192 4.8 24.0 1.0
CA B:MET191 4.8 23.0 1.0
O B:SER194 4.9 25.0 1.0
CG2 B:THR199 4.9 28.9 1.0
OD2 B:ASP196 5.0 24.6 1.0

Potassium binding site 3 out of 4 in 2h88

Go back to Potassium Binding Sites List in 2h88
Potassium binding site 3 out of 4 in the Avian Mitochondrial Respiratory Complex II at 1.8 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Avian Mitochondrial Respiratory Complex II at 1.8 Angstrom Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
N:K622

b:25.8
occ:1.00
 O N:ASN366 2.6 15.2 1.0
O N:GLU397 2.7 15.6 1.0
O N:ALA399 2.7 17.2 1.0
O N:GLY368 3.0 19.9 1.0
O N:MET367 3.1 21.6 1.0
C N:MET367 3.5 18.6 1.0
OH N:TYR365 3.5 18.9 1.0
C N:GLU397 3.6 14.3 1.0
C N:ASN366 3.8 13.8 1.0
C N:GLY368 3.8 21.9 1.0
C N:ALA399 3.9 21.4 1.0
CA N:GLU397 4.0 13.5 1.0
CA N:MET367 4.0 16.5 1.0
O N:HOH1086 4.1 29.5 1.0
CZ N:TYR365 4.1 16.0 1.0
O N:HOH1138 4.2 22.3 1.0
N N:GLY368 4.2 17.8 1.0
CG N:GLU397 4.3 15.2 1.0
N N:MET367 4.4 14.8 1.0
O N:GLY396 4.4 16.0 1.0
CE2 N:TYR365 4.4 14.4 1.0
N N:ALA399 4.4 17.5 1.0
O N:HOH1073 4.4 29.5 1.0
CA N:GLY368 4.5 19.6 1.0
N N:GLY369 4.7 17.3 1.0
N N:ALA398 4.7 14.2 1.0
CA N:ALA399 4.7 18.9 1.0
C N:ALA398 4.7 14.6 1.0
CB N:GLU397 4.8 15.2 1.0
N N:SER400 4.8 19.2 1.0
CA N:GLY369 4.8 16.1 1.0
CA N:SER400 4.9 20.6 1.0
CA N:ASN366 4.9 14.0 1.0
CB N:ASN366 5.0 14.6 1.0

Potassium binding site 4 out of 4 in 2h88

Go back to Potassium Binding Sites List in 2h88
Potassium binding site 4 out of 4 in the Avian Mitochondrial Respiratory Complex II at 1.8 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of Avian Mitochondrial Respiratory Complex II at 1.8 Angstrom Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
O:K253

b:39.9
occ:1.00
 O O:ASP193 2.7 21.1 1.0
O O:HOH1082 2.7 62.4 1.0
O O:HOH1040 2.7 43.0 1.0
O O:MET191 2.9 23.1 1.0
O O:ASP196 3.0 23.2 1.0
OG1 O:THR199 3.0 32.5 1.0
O O:HOH1047 3.1 23.7 1.0
C O:ASP193 3.7 20.0 1.0
C O:MET191 3.9 25.3 1.0
C O:ASP196 4.0 24.7 1.0
N O:ASP193 4.2 21.1 1.0
CB O:ASP196 4.3 21.9 1.0
C O:ILE192 4.3 22.7 1.0
O O:TRP190 4.3 22.0 1.0
CA O:SER194 4.4 24.0 1.0
N O:SER194 4.4 22.2 1.0
CB O:THR199 4.4 28.0 1.0
N O:ASP196 4.4 23.6 1.0
CA O:ASP196 4.5 21.6 1.0
CA O:ILE192 4.5 24.9 1.0
O O:HOH1219 4.6 36.4 1.0
CA O:ASP193 4.6 17.1 1.0
N O:ILE192 4.7 24.5 1.0
C O:SER194 4.7 26.0 1.0
O O:ILE192 4.7 25.7 1.0
CA O:MET191 4.8 23.4 1.0
CG2 O:THR199 4.9 31.4 1.0
O O:SER194 4.9 24.9 1.0
OD2 O:ASP196 5.0 23.2 1.0

Reference:

L.S.Huang, J.T.Shen, A.C.Wang, E.A.Berry. Crystallographic Studies of the Binding of Ligands to the Dicarboxylate Site of Complex II, and the Identity of the Ligand in the Biochim.Biophys.Acta V.1757 1073.
ISSN: ISSN 0006-3002
PubMed: 16935256
DOI: 10.1016/J.BBABIO.2006.06.015
Page generated: Mon Aug 12 06:31:00 2024

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