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Potassium in PDB 9bz1: Cocrystal Structure of Clostridium Beijerinckii Ztp Riboswitch with Aica

Protein crystallography data

The structure of Cocrystal Structure of Clostridium Beijerinckii Ztp Riboswitch with Aica, PDB code: 9bz1 was solved by C.J.Jones, A.R.Ferre D'amare, B.Tran, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 49.06 / 2.80
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 115.069, 47.642, 113.791, 90, 120.42, 90
R / Rfree (%) 21 / 24.8

Other elements in 9bz1:

The structure of Cocrystal Structure of Clostridium Beijerinckii Ztp Riboswitch with Aica also contains other interesting chemical elements:

Magnesium (Mg) 6 atoms

Potassium Binding Sites:

The binding sites of Potassium atom in the Cocrystal Structure of Clostridium Beijerinckii Ztp Riboswitch with Aica (pdb code 9bz1). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 8 binding sites of Potassium where determined in the Cocrystal Structure of Clostridium Beijerinckii Ztp Riboswitch with Aica, PDB code: 9bz1:
Jump to Potassium binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Potassium binding site 1 out of 8 in 9bz1

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Potassium binding site 1 out of 8 in the Cocrystal Structure of Clostridium Beijerinckii Ztp Riboswitch with Aica


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Cocrystal Structure of Clostridium Beijerinckii Ztp Riboswitch with Aica within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K106

b:63.4
occ:1.00
 O3' A:G36 3.0 59.2 1.0
OP1 A:A37 3.3 57.0 1.0
OP1 A:C80 3.6 70.8 1.0
P A:A37 3.8 59.5 1.0
O2' A:G36 4.0 53.9 1.0
C3' A:G36 4.1 54.4 1.0
OP2 A:C80 4.3 64.1 1.0
C4' A:G36 4.3 55.4 1.0
P A:C80 4.4 63.0 1.0
C2' A:G36 4.7 53.6 1.0
C5' A:A37 4.7 52.8 1.0
O5' A:A37 4.8 48.5 1.0
C5' A:G36 4.9 55.2 1.0
OP2 A:A37 4.9 56.0 1.0

Potassium binding site 2 out of 8 in 9bz1

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Potassium binding site 2 out of 8 in the Cocrystal Structure of Clostridium Beijerinckii Ztp Riboswitch with Aica


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Cocrystal Structure of Clostridium Beijerinckii Ztp Riboswitch with Aica within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K107

b:72.9
occ:1.00
 O2' A:G17 2.9 74.7 1.0
O4' A:G18 3.7 73.8 1.0
C2' A:G17 3.8 73.2 1.0
N3 A:G17 4.2 68.1 1.0
C1' A:G17 4.3 71.2 1.0
C4' A:G18 4.4 76.4 1.0
C1' A:G18 4.6 72.7 1.0
C5' A:G18 4.7 77.7 1.0
N2 A:G17 4.8 67.0 1.0
C2 A:G17 5.0 66.7 1.0

Potassium binding site 3 out of 8 in 9bz1

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Potassium binding site 3 out of 8 in the Cocrystal Structure of Clostridium Beijerinckii Ztp Riboswitch with Aica


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Cocrystal Structure of Clostridium Beijerinckii Ztp Riboswitch with Aica within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K108

b:84.1
occ:1.00
 O2' A:U40 3.5 51.4 1.0
OP1 B:C31 3.7 50.5 1.0
OP2 B:A32 3.9 49.5 1.0
OP2 B:C12 4.2 51.0 1.0
OP2 B:U13 4.5 43.2 1.0
OP1 B:A32 4.5 52.2 1.0
P B:A32 4.6 48.5 1.0
P B:C31 4.7 46.9 1.0
C2' A:U40 4.8 50.4 1.0
C4' A:U40 4.8 48.9 1.0
O5' B:C31 4.9 46.8 1.0
O3' A:U40 5.0 55.7 1.0

Potassium binding site 4 out of 8 in 9bz1

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Potassium binding site 4 out of 8 in the Cocrystal Structure of Clostridium Beijerinckii Ztp Riboswitch with Aica


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of Cocrystal Structure of Clostridium Beijerinckii Ztp Riboswitch with Aica within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K104

b:61.8
occ:1.00
 O2 B:U83 2.8 41.6 1.0
O2 B:C16 3.3 38.9 1.0
N2 B:G82 3.7 38.0 1.0
C2 B:U83 3.8 39.9 1.0
C1' B:U83 4.2 42.6 1.0
C2 B:C16 4.4 38.9 1.0
C2 B:A15 4.4 40.7 1.0
O2' B:U83 4.4 43.3 1.0
N1 B:U83 4.5 38.5 1.0
C1' B:C16 4.6 37.4 1.0
C2' B:U83 4.6 41.2 1.0
O2' B:C16 4.8 40.1 1.0
N3 B:U83 4.8 40.0 1.0
C2 B:G82 4.8 38.0 1.0
N1 B:A15 5.0 36.9 1.0
N1 B:C16 5.0 36.6 1.0

Potassium binding site 5 out of 8 in 9bz1

Go back to Potassium Binding Sites List in 9bz1
Potassium binding site 5 out of 8 in the Cocrystal Structure of Clostridium Beijerinckii Ztp Riboswitch with Aica


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 5 of Cocrystal Structure of Clostridium Beijerinckii Ztp Riboswitch with Aica within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K105

b:57.5
occ:1.00
 OP1 B:G75 3.1 49.8 1.0
O3' B:A74 3.4 55.9 1.0
O2' B:A74 3.4 53.8 1.0
P B:G75 3.8 49.2 1.0
C5' B:G75 4.3 49.5 1.0
C2' B:A74 4.4 50.0 1.0
C3' B:A74 4.4 53.8 1.0
O5' B:G75 4.6 56.5 1.0
C1' B:A74 4.8 50.3 1.0

Potassium binding site 6 out of 8 in 9bz1

Go back to Potassium Binding Sites List in 9bz1
Potassium binding site 6 out of 8 in the Cocrystal Structure of Clostridium Beijerinckii Ztp Riboswitch with Aica


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 6 of Cocrystal Structure of Clostridium Beijerinckii Ztp Riboswitch with Aica within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K106

b:47.8
occ:1.00
 O6 B:G17 2.8 38.6 1.0
O2' B:A20 2.9 39.9 1.0
O6 B:G18 3.0 36.5 1.0
O B:HOH201 3.0 33.9 1.0
C6 B:G17 3.6 37.3 1.0
N7 B:G17 3.6 38.4 1.0
C2' B:A20 3.8 39.1 1.0
C5 B:G17 3.9 37.0 1.0
N4 B:C16 3.9 37.7 1.0
C6 B:G18 4.0 36.4 1.0
N4 B:C80 4.3 39.6 1.0
N7 B:G18 4.3 39.4 1.0
C4 B:C16 4.4 36.2 1.0
C3' B:A20 4.5 37.3 1.0
C5 B:G18 4.5 37.6 1.0
C5 B:C16 4.7 38.6 1.0
N4 B:C81 4.8 37.0 1.0
C8 B:G17 4.8 37.2 1.0
N1 B:G17 4.8 35.9 1.0
O3' B:A20 4.9 36.4 1.0

Potassium binding site 7 out of 8 in 9bz1

Go back to Potassium Binding Sites List in 9bz1
Potassium binding site 7 out of 8 in the Cocrystal Structure of Clostridium Beijerinckii Ztp Riboswitch with Aica


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 7 of Cocrystal Structure of Clostridium Beijerinckii Ztp Riboswitch with Aica within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K107

b:59.7
occ:1.00
 O3' B:G36 3.1 48.9 1.0
OP1 B:A37 3.4 48.9 1.0
OP1 B:C80 3.5 46.6 1.0
P B:A37 3.9 50.1 1.0
C3' B:G36 4.3 46.2 1.0
OP2 B:C80 4.3 56.2 1.0
P B:C80 4.4 50.8 1.0
C4' B:G36 4.4 44.0 1.0
O2' B:G36 4.5 47.3 1.0
OP2 B:A37 4.8 40.9 1.0
C5' B:G36 4.8 48.3 1.0

Potassium binding site 8 out of 8 in 9bz1

Go back to Potassium Binding Sites List in 9bz1
Potassium binding site 8 out of 8 in the Cocrystal Structure of Clostridium Beijerinckii Ztp Riboswitch with Aica


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 8 of Cocrystal Structure of Clostridium Beijerinckii Ztp Riboswitch with Aica within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K108

b:96.5
occ:1.00
 OP1 B:A20 4.0 45.6 1.0
OP2 B:A19 4.0 41.1 1.0
OP2 B:G18 4.4 46.8 1.0
P B:A20 4.8 40.6 1.0
OP2 B:A20 4.9 41.3 1.0
OP1 B:G18 4.9 49.0 1.0

Reference:

C.P.Jones, B.Tran, A.R.Ferre-D'amare. Cocrystal Structure of Clostridium Beijerinckii Ztp Riboswitch with Aica To Be Published.
Page generated: Sat Aug 9 18:32:07 2025

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