Potassium in PDB 8ooi: Full Composite Cryo-Em Map of P97/Vcp in Adp.Pi State

Enzymatic activity of Full Composite Cryo-Em Map of P97/Vcp in Adp.Pi State

All present enzymatic activity of Full Composite Cryo-Em Map of P97/Vcp in Adp.Pi State:
3.6.4.6;

Other elements in 8ooi:

The structure of Full Composite Cryo-Em Map of P97/Vcp in Adp.Pi State also contains other interesting chemical elements:

Magnesium (Mg) 18 atoms

Potassium Binding Sites:

The binding sites of Potassium atom in the Full Composite Cryo-Em Map of P97/Vcp in Adp.Pi State (pdb code 8ooi). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 6 binding sites of Potassium where determined in the Full Composite Cryo-Em Map of P97/Vcp in Adp.Pi State, PDB code: 8ooi:
Jump to Potassium binding site number: 1; 2; 3; 4; 5; 6;

Potassium binding site 1 out of 6 in 8ooi

Go back to Potassium Binding Sites List in 8ooi
Potassium binding site 1 out of 6 in the Full Composite Cryo-Em Map of P97/Vcp in Adp.Pi State


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Full Composite Cryo-Em Map of P97/Vcp in Adp.Pi State within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K905

b:50.0
occ:1.00
 O2A A:ADP901 3.1 50.0 1.0
O1A A:ADP901 3.7 50.0 1.0
PA A:ADP901 3.7 50.0 1.0
C5' A:ADP901 4.1 50.0 1.0
O5' A:ADP901 4.2 50.0 1.0
CB A:THR252 4.3 50.0 1.0
C3' A:ADP901 4.3 50.0 1.0
O3' A:ADP901 4.4 50.0 1.0
CG2 A:THR252 4.5 50.0 1.0
MG A:MG904 4.5 50.0 0.5
N A:LEU253 4.7 28.2 1.0
C4' A:ADP901 4.8 50.0 1.0

Potassium binding site 2 out of 6 in 8ooi

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Potassium binding site 2 out of 6 in the Full Composite Cryo-Em Map of P97/Vcp in Adp.Pi State


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Full Composite Cryo-Em Map of P97/Vcp in Adp.Pi State within 5.0Å range:
probe atom residue distance (Å) B Occ
F:K906

b:50.0
occ:1.00
 O2A F:ADP902 3.1 50.0 1.0
O1A F:ADP902 3.7 50.0 1.0
PA F:ADP902 3.7 50.0 1.0
C5' F:ADP902 4.1 50.0 1.0
O5' F:ADP902 4.2 50.0 1.0
CB F:THR252 4.3 50.0 1.0
C3' F:ADP902 4.3 50.0 1.0
O3' F:ADP902 4.4 50.0 1.0
CG2 F:THR252 4.5 50.0 1.0
MG F:MG905 4.5 50.0 0.5
N F:LEU253 4.7 28.2 1.0
C4' F:ADP902 4.8 50.0 1.0

Potassium binding site 3 out of 6 in 8ooi

Go back to Potassium Binding Sites List in 8ooi
Potassium binding site 3 out of 6 in the Full Composite Cryo-Em Map of P97/Vcp in Adp.Pi State


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Full Composite Cryo-Em Map of P97/Vcp in Adp.Pi State within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K905

b:50.0
occ:1.00
 O2A B:ADP901 3.1 50.0 1.0
O1A B:ADP901 3.7 50.0 1.0
PA B:ADP901 3.7 50.0 1.0
C5' B:ADP901 4.1 50.0 1.0
O5' B:ADP901 4.2 50.0 1.0
CB B:THR252 4.3 50.0 1.0
C3' B:ADP901 4.3 50.0 1.0
O3' B:ADP901 4.4 50.0 1.0
CG2 B:THR252 4.5 50.0 1.0
MG B:MG904 4.5 50.0 0.5
N B:LEU253 4.7 28.2 1.0
C4' B:ADP901 4.8 50.0 1.0

Potassium binding site 4 out of 6 in 8ooi

Go back to Potassium Binding Sites List in 8ooi
Potassium binding site 4 out of 6 in the Full Composite Cryo-Em Map of P97/Vcp in Adp.Pi State


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of Full Composite Cryo-Em Map of P97/Vcp in Adp.Pi State within 5.0Å range:
probe atom residue distance (Å) B Occ
D:K905

b:50.0
occ:1.00
 O2A D:ADP901 3.1 50.0 1.0
O1A D:ADP901 3.7 50.0 1.0
PA D:ADP901 3.7 50.0 1.0
C5' D:ADP901 4.1 50.0 1.0
O5' D:ADP901 4.2 50.0 1.0
CB D:THR252 4.3 50.0 1.0
C3' D:ADP901 4.3 50.0 1.0
O3' D:ADP901 4.4 50.0 1.0
CG2 D:THR252 4.5 50.0 1.0
MG D:MG904 4.5 50.0 0.5
N D:LEU253 4.7 28.2 1.0
C4' D:ADP901 4.8 50.0 1.0

Potassium binding site 5 out of 6 in 8ooi

Go back to Potassium Binding Sites List in 8ooi
Potassium binding site 5 out of 6 in the Full Composite Cryo-Em Map of P97/Vcp in Adp.Pi State


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 5 of Full Composite Cryo-Em Map of P97/Vcp in Adp.Pi State within 5.0Å range:
probe atom residue distance (Å) B Occ
C:K906

b:50.0
occ:1.00
 O2A C:ADP902 3.1 50.0 1.0
O1A C:ADP902 3.7 50.0 1.0
PA C:ADP902 3.7 50.0 1.0
C5' C:ADP902 4.1 50.0 1.0
O5' C:ADP902 4.2 50.0 1.0
CB C:THR252 4.3 50.0 1.0
C3' C:ADP902 4.3 50.0 1.0
O3' C:ADP902 4.4 50.0 1.0
CG2 C:THR252 4.5 50.0 1.0
MG C:MG905 4.5 50.0 0.5
N C:LEU253 4.7 28.2 1.0
C4' C:ADP902 4.8 50.0 1.0

Potassium binding site 6 out of 6 in 8ooi

Go back to Potassium Binding Sites List in 8ooi
Potassium binding site 6 out of 6 in the Full Composite Cryo-Em Map of P97/Vcp in Adp.Pi State


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 6 of Full Composite Cryo-Em Map of P97/Vcp in Adp.Pi State within 5.0Å range:
probe atom residue distance (Å) B Occ
E:K906

b:50.0
occ:1.00
 O2A E:ADP902 3.1 50.0 1.0
O1A E:ADP902 3.7 50.0 1.0
PA E:ADP902 3.7 50.0 1.0
C5' E:ADP902 4.1 50.0 1.0
O5' E:ADP902 4.2 50.0 1.0
CB E:THR252 4.3 50.0 1.0
C3' E:ADP902 4.3 50.0 1.0
O3' E:ADP902 4.4 50.0 1.0
CG2 E:THR252 4.5 50.0 1.0
MG E:MG905 4.5 50.0 0.5
N E:LEU253 4.7 28.2 1.0
C4' E:ADP902 4.8 50.0 1.0

Reference:

M.Shein, M.Hitzenberger, Cheng T.C., Rout S.R., Leitl K.D., Sato Y., Zacharias M., Sakata E., Schuetz A.K.. Characterizing Atp Processing By the Aaa+ Protein P97 at the Atomic Level Nat.Chem. 2024.
ISSN: ESSN 1755-4349
DOI: 10.1038/S41557-024-01440-0
Page generated: Tue Aug 13 00:15:43 2024

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