Atomistry » Potassium » PDB 7yze-7zrh » 7zrd
Atomistry »
  Potassium »
    PDB 7yze-7zrh »
      7zrd »

Potassium in PDB 7zrd: Cryo-Em Map of the Wt Kdpfabc Complex in the E1-P Tight Conformation, Stabilised with the Inhibitor Orthovanadate

Enzymatic activity of Cryo-Em Map of the Wt Kdpfabc Complex in the E1-P Tight Conformation, Stabilised with the Inhibitor Orthovanadate

All present enzymatic activity of Cryo-Em Map of the Wt Kdpfabc Complex in the E1-P Tight Conformation, Stabilised with the Inhibitor Orthovanadate:
7.2.2.6;

Other elements in 7zrd:

The structure of Cryo-Em Map of the Wt Kdpfabc Complex in the E1-P Tight Conformation, Stabilised with the Inhibitor Orthovanadate also contains other interesting chemical elements:

Vanadium (V) 1 atom

Potassium Binding Sites:

The binding sites of Potassium atom in the Cryo-Em Map of the Wt Kdpfabc Complex in the E1-P Tight Conformation, Stabilised with the Inhibitor Orthovanadate (pdb code 7zrd). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 9 binding sites of Potassium where determined in the Cryo-Em Map of the Wt Kdpfabc Complex in the E1-P Tight Conformation, Stabilised with the Inhibitor Orthovanadate, PDB code: 7zrd:
Jump to Potassium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9;

Potassium binding site 1 out of 9 in 7zrd

Go back to Potassium Binding Sites List in 7zrd
Potassium binding site 1 out of 9 in the Cryo-Em Map of the Wt Kdpfabc Complex in the E1-P Tight Conformation, Stabilised with the Inhibitor Orthovanadate


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Cryo-Em Map of the Wt Kdpfabc Complex in the E1-P Tight Conformation, Stabilised with the Inhibitor Orthovanadate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K601

b:26.2
occ:1.00
 CG1 A:VAL538 3.5 17.4 1.0
CG A:PRO425 3.6 13.1 1.0
O A:ILE368 4.0 13.4 1.0
K A:K605 4.1 24.2 1.0
CZ A:PHE386 4.2 14.2 1.0
OG1 A:THR542 4.3 14.6 1.0
O A:GLN367 4.4 12.0 1.0
O A:ILE421 4.5 12.7 1.0
CD A:PRO425 4.5 13.1 1.0
C A:ILE368 4.5 13.4 1.0
CG2 A:ILE421 4.6 12.7 1.0
CB A:PRO425 4.8 13.1 1.0
O A:VAL538 4.8 17.4 1.0
CE1 A:PHE386 4.8 14.2 1.0
CB A:THR542 4.9 14.6 1.0
CA A:ILE368 4.9 13.4 1.0
CG2 A:THR542 4.9 14.6 1.0
K A:K602 4.9 63.3 1.0
CB A:VAL538 4.9 17.4 1.0
C A:VAL538 4.9 17.4 1.0

Potassium binding site 2 out of 9 in 7zrd

Go back to Potassium Binding Sites List in 7zrd
Potassium binding site 2 out of 9 in the Cryo-Em Map of the Wt Kdpfabc Complex in the E1-P Tight Conformation, Stabilised with the Inhibitor Orthovanadate


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Cryo-Em Map of the Wt Kdpfabc Complex in the E1-P Tight Conformation, Stabilised with the Inhibitor Orthovanadate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K602

b:63.3
occ:1.00
 CA A:GLY369 3.4 14.7 1.0
CE2 A:PHE386 3.8 14.2 1.0
O A:GLY369 3.9 14.7 1.0
O A:ILE368 4.1 13.4 1.0
C A:GLY369 4.1 14.7 1.0
CZ A:PHE386 4.2 14.2 1.0
OG1 A:THR424 4.3 12.9 1.0
N A:GLY369 4.5 14.7 1.0
CG1 A:VAL371 4.5 13.5 1.0
K A:K603 4.6 45.3 1.0
CD2 A:PHE386 4.7 14.2 1.0
C A:ILE368 4.7 13.4 1.0
CA A:GLY382 4.8 14.2 1.0
O A:ALA420 4.8 11.9 1.0
CA A:ILE421 4.9 12.7 1.0
K A:K601 4.9 26.2 1.0
O A:GLY382 5.0 14.2 1.0
O A:ILE421 5.0 12.7 1.0

Potassium binding site 3 out of 9 in 7zrd

Go back to Potassium Binding Sites List in 7zrd
Potassium binding site 3 out of 9 in the Cryo-Em Map of the Wt Kdpfabc Complex in the E1-P Tight Conformation, Stabilised with the Inhibitor Orthovanadate


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Cryo-Em Map of the Wt Kdpfabc Complex in the E1-P Tight Conformation, Stabilised with the Inhibitor Orthovanadate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K603

b:45.3
occ:1.00
 K A:K604 3.3 28.3 1.0
O A:GLY369 3.4 14.7 1.0
CG2 A:THR424 3.9 12.9 1.0
C A:GLY369 4.3 14.7 1.0
ND2 A:ASN465 4.3 10.5 1.0
OG1 A:THR424 4.5 12.9 1.0
O A:SER378 4.5 13.9 1.0
K A:K602 4.6 63.3 1.0
O A:ASN465 4.7 10.5 1.0
CA A:GLY369 4.7 14.7 1.0
CB A:THR424 4.7 12.9 1.0
CG1 A:VAL496 4.8 10.0 1.0
CA A:ASN465 4.8 10.5 1.0
CG2 A:VAL496 4.9 10.0 1.0
O A:GLY492 4.9 8.9 1.0

Potassium binding site 4 out of 9 in 7zrd

Go back to Potassium Binding Sites List in 7zrd
Potassium binding site 4 out of 9 in the Cryo-Em Map of the Wt Kdpfabc Complex in the E1-P Tight Conformation, Stabilised with the Inhibitor Orthovanadate


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of Cryo-Em Map of the Wt Kdpfabc Complex in the E1-P Tight Conformation, Stabilised with the Inhibitor Orthovanadate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K604

b:28.3
occ:1.00
 OD1 A:ASN466 3.3 9.5 1.0
K A:K603 3.3 45.3 1.0
O A:GLY492 3.4 8.9 1.0
OH A:TYR381 3.8 13.1 1.0
O A:SER378 4.1 13.9 1.0
CG A:ASN466 4.3 9.5 1.0
CD A:ARG493 4.3 9.1 1.0
CB A:SER378 4.3 13.9 1.0
C A:GLY492 4.5 8.9 1.0
OG A:SER378 4.5 13.9 1.0
CB A:ASN466 4.5 9.5 1.0
NE A:ARG493 4.6 9.1 1.0
CA A:ARG493 4.6 9.1 1.0
CE1 A:TYR381 4.6 13.1 1.0
CB A:VAL496 4.6 10.0 1.0
CZ A:TYR381 4.7 13.1 1.0
CG1 A:VAL496 4.8 10.0 1.0
O A:ASN465 4.8 10.5 1.0
CG2 A:VAL496 4.9 10.0 1.0
C A:SER378 4.9 13.9 1.0
N A:ARG493 5.0 9.1 1.0

Potassium binding site 5 out of 9 in 7zrd

Go back to Potassium Binding Sites List in 7zrd
Potassium binding site 5 out of 9 in the Cryo-Em Map of the Wt Kdpfabc Complex in the E1-P Tight Conformation, Stabilised with the Inhibitor Orthovanadate


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 5 of Cryo-Em Map of the Wt Kdpfabc Complex in the E1-P Tight Conformation, Stabilised with the Inhibitor Orthovanadate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K605

b:24.2
occ:1.00
 CG2 A:ILE421 3.4 12.7 1.0
K B:K701 3.5 23.8 1.0
CG1 B:VAL231 3.6 12.5 1.0
CG2 B:VAL231 3.8 12.5 1.0
CG1 A:VAL538 3.8 17.4 1.0
OG1 A:THR542 4.1 14.6 1.0
K A:K601 4.1 26.2 1.0
CB B:VAL231 4.2 12.5 1.0
CB A:ILE421 4.9 12.7 1.0
CD2 B:LEU228 4.9 12.7 1.0
CD2 A:LEU422 4.9 12.4 1.0
O A:ILE421 5.0 12.7 1.0
CB A:VAL538 5.0 17.4 1.0
O B:ALA227 5.0 12.5 1.0

Potassium binding site 6 out of 9 in 7zrd

Go back to Potassium Binding Sites List in 7zrd
Potassium binding site 6 out of 9 in the Cryo-Em Map of the Wt Kdpfabc Complex in the E1-P Tight Conformation, Stabilised with the Inhibitor Orthovanadate


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 6 of Cryo-Em Map of the Wt Kdpfabc Complex in the E1-P Tight Conformation, Stabilised with the Inhibitor Orthovanadate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K606

b:15.8
occ:1.00
 O A:ASN112 2.8 8.6 1.0
O A:ASN231 2.8 9.3 1.0
O A:SER343 2.8 10.6 1.0
O A:ASN467 2.8 10.1 1.0
O A:ASN466 2.9 9.5 1.0
O A:THR113 3.2 8.6 1.0
O A:THR230 3.3 9.8 1.0
C A:ASN467 3.6 10.1 1.0
C A:THR113 3.7 8.6 1.0
CA A:THR113 3.7 8.6 1.0
C A:SER343 3.7 10.6 1.0
C A:ASN112 3.7 8.6 1.0
C A:ASN231 3.8 9.3 1.0
C A:ASN466 3.8 9.5 1.0
OG A:SER343 3.9 10.6 1.0
CA A:ASN467 3.9 10.1 1.0
CA A:CYS344 4.1 10.3 1.0
N A:GLY345 4.1 10.2 1.0
N A:THR113 4.1 8.6 1.0
CA A:ASN231 4.2 9.3 1.0
N A:CYS344 4.2 10.3 1.0
N A:ASN467 4.3 10.1 1.0
C A:THR230 4.4 9.8 1.0
C A:CYS344 4.4 10.3 1.0
ND2 A:ASN114 4.6 8.9 1.0
N A:GLY468 4.6 9.9 1.0
N A:ASN114 4.7 8.9 1.0
ND2 A:ASN112 4.7 8.6 1.0
CA A:SER343 4.8 10.6 1.0
N A:ASN231 4.8 9.3 1.0
CB A:ASN114 4.8 8.9 1.0
CG A:ASN112 4.9 8.6 1.0
CB A:SER343 4.9 10.6 1.0
OD1 A:ASN467 4.9 10.1 1.0
CA A:ASN112 4.9 8.6 1.0
N A:GLY232 5.0 9.9 1.0

Potassium binding site 7 out of 9 in 7zrd

Go back to Potassium Binding Sites List in 7zrd
Potassium binding site 7 out of 9 in the Cryo-Em Map of the Wt Kdpfabc Complex in the E1-P Tight Conformation, Stabilised with the Inhibitor Orthovanadate


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 7 of Cryo-Em Map of the Wt Kdpfabc Complex in the E1-P Tight Conformation, Stabilised with the Inhibitor Orthovanadate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K607

b:19.6
occ:1.00
 O A:ASN114 3.0 8.9 1.0
ND2 A:ASN239 3.0 10.6 1.0
O A:GLY468 3.0 9.9 1.0
O A:GLY232 3.3 9.9 1.0
N A:GLN116 3.8 11.5 1.0
O A:GLY345 3.8 10.2 1.0
CG A:GLN116 4.0 11.5 1.0
C A:GLY468 4.0 9.9 1.0
C A:ASN114 4.1 8.9 1.0
CG A:ASN239 4.1 10.6 1.0
CB A:GLN116 4.2 11.5 1.0
CA A:TRP115 4.2 10.4 1.0
C A:GLY345 4.4 10.2 1.0
C A:GLY232 4.5 9.9 1.0
C A:TRP115 4.5 10.4 1.0
CA A:GLY345 4.5 10.2 1.0
CA A:GLN116 4.6 11.5 1.0
N A:TRP115 4.7 10.4 1.0
OD1 A:ASN239 4.8 10.6 1.0
CA A:GLY468 4.8 9.9 1.0
N A:SER469 4.9 10.5 1.0

Potassium binding site 8 out of 9 in 7zrd

Go back to Potassium Binding Sites List in 7zrd
Potassium binding site 8 out of 9 in the Cryo-Em Map of the Wt Kdpfabc Complex in the E1-P Tight Conformation, Stabilised with the Inhibitor Orthovanadate


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 8 of Cryo-Em Map of the Wt Kdpfabc Complex in the E1-P Tight Conformation, Stabilised with the Inhibitor Orthovanadate within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K701

b:23.8
occ:1.00
 K A:K605 3.5 24.2 1.0
CG2 A:ILE421 3.9 12.7 1.0
CD2 B:LEU228 4.0 12.7 1.0
CB B:ALA227 4.0 12.5 1.0
CD2 A:LEU389 4.4 14.7 1.0
CG B:LEU228 4.4 12.7 1.0
CD1 A:ILE421 4.5 12.7 1.0
CD1 A:LEU389 4.6 14.7 1.0
N B:LEU228 4.7 12.7 1.0
C B:ALA227 4.8 12.5 1.0
O B:LEU224 4.8 14.6 1.0
CB A:ILE421 4.9 12.7 1.0

Potassium binding site 9 out of 9 in 7zrd

Go back to Potassium Binding Sites List in 7zrd
Potassium binding site 9 out of 9 in the Cryo-Em Map of the Wt Kdpfabc Complex in the E1-P Tight Conformation, Stabilised with the Inhibitor Orthovanadate


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 9 of Cryo-Em Map of the Wt Kdpfabc Complex in the E1-P Tight Conformation, Stabilised with the Inhibitor Orthovanadate within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K702

b:23.2
occ:1.00
 OD1 B:ASP583 3.3 17.5 1.0
O B:SER579 3.3 19.1 1.0
O B:ILE263 3.5 15.5 1.0
O B:CYS261 3.9 15.4 1.0
NZ B:LYS586 4.0 16.2 1.0
CA B:PRO264 4.0 16.5 1.0
CB B:ASN582 4.1 18.9 1.0
C B:SER579 4.2 19.1 1.0
O B:LEU262 4.2 14.9 1.0
CA B:SER579 4.2 19.1 1.0
N B:THR265 4.3 17.6 1.0
C B:ILE263 4.3 15.5 1.0
OG1 B:THR266 4.4 18.6 1.0
CG B:ASP583 4.4 17.5 1.0
CB B:SER579 4.5 19.1 1.0
OG1 B:THR265 4.5 17.6 1.0
N B:PRO264 4.5 16.5 1.0
C B:PRO264 4.7 16.5 1.0
ND2 B:ASN582 4.7 18.9 1.0
C B:LEU262 4.7 14.9 1.0
OD1 B:ASN624 4.8 16.2 1.0
OD2 B:ASP583 4.9 17.5 1.0
C B:CYS261 4.9 15.4 1.0
CG B:ASN582 4.9 18.9 1.0
N B:THR266 5.0 18.6 1.0

Reference:

J.M.Silberberg, C.Stock, L.Hielkema, R.A.Corey, J.Rheinberger, D.Wunnicke, V.R.A.Dubach, P.J.Stansfeld, I.Hanelt, C.Paulino. Inhibited Kdpfabc Transitions Into An E1 Off-Cycle State. Elife V. 11 2022.
ISSN: ESSN 2050-084X
PubMed: 36255052
DOI: 10.7554/ELIFE.80988
Page generated: Mon Aug 12 21:51:21 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy