Potassium in PDB 7nnl: Cryo-Em Structure of the Kdpfabc Complex in An E1-Atp Conformation Loaded with K+

Enzymatic activity of Cryo-Em Structure of the Kdpfabc Complex in An E1-Atp Conformation Loaded with K+

All present enzymatic activity of Cryo-Em Structure of the Kdpfabc Complex in An E1-Atp Conformation Loaded with K+:
7.2.2.6;

Potassium Binding Sites:

The binding sites of Potassium atom in the Cryo-Em Structure of the Kdpfabc Complex in An E1-Atp Conformation Loaded with K+ (pdb code 7nnl). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 10 binding sites of Potassium where determined in the Cryo-Em Structure of the Kdpfabc Complex in An E1-Atp Conformation Loaded with K+, PDB code: 7nnl:
Jump to Potassium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Potassium binding site 1 out of 10 in 7nnl

Go back to Potassium Binding Sites List in 7nnl
Potassium binding site 1 out of 10 in the Cryo-Em Structure of the Kdpfabc Complex in An E1-Atp Conformation Loaded with K+


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Cryo-Em Structure of the Kdpfabc Complex in An E1-Atp Conformation Loaded with K+ within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K601

b:47.6
occ:1.00
 CG1 A:VAL538 3.4 38.9 1.0
K A:K602 3.6 44.8 1.0
O A:ILE421 3.8 33.9 1.0
K B:K701 3.9 42.3 1.0
CG1 B:VAL231 3.9 33.7 1.0
CG A:PRO425 4.1 30.3 1.0
OG1 A:THR542 4.1 35.5 1.0
CG1 A:ILE421 4.3 33.9 1.0
CG2 A:ILE421 4.5 33.9 1.0
O A:VAL538 4.6 38.9 1.0
CG2 B:VAL231 4.6 33.7 1.0
CB B:VAL231 4.6 33.7 1.0
C A:ILE421 4.7 33.9 1.0
CD1 A:ILE421 4.8 33.9 1.0
CB A:VAL538 4.8 38.9 1.0
CB A:ILE421 5.0 33.9 1.0
CB A:PRO425 5.0 30.3 1.0

Potassium binding site 2 out of 10 in 7nnl

Go back to Potassium Binding Sites List in 7nnl
Potassium binding site 2 out of 10 in the Cryo-Em Structure of the Kdpfabc Complex in An E1-Atp Conformation Loaded with K+


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Cryo-Em Structure of the Kdpfabc Complex in An E1-Atp Conformation Loaded with K+ within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K602

b:44.8
occ:1.00
 CG A:PRO425 3.4 30.3 1.0
K A:K601 3.6 47.6 1.0
O A:GLN367 3.8 31.9 1.0
O A:ILE368 4.0 33.5 1.0
CD A:PRO425 4.0 30.3 1.0
C A:ILE368 4.2 33.5 1.0
O A:ILE421 4.2 33.9 1.0
CZ A:PHE386 4.3 36.2 1.0
CA A:ILE368 4.4 33.5 1.0
CB A:PRO425 4.5 30.3 1.0
CE2 A:PHE543 4.6 32.4 1.0
CG1 A:ILE421 4.7 33.9 1.0
CG1 A:VAL538 4.7 38.9 1.0
N A:GLY369 4.8 34.9 1.0
C A:GLN367 4.8 31.9 1.0
CA A:GLY539 4.8 37.2 1.0

Potassium binding site 3 out of 10 in 7nnl

Go back to Potassium Binding Sites List in 7nnl
Potassium binding site 3 out of 10 in the Cryo-Em Structure of the Kdpfabc Complex in An E1-Atp Conformation Loaded with K+


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Cryo-Em Structure of the Kdpfabc Complex in An E1-Atp Conformation Loaded with K+ within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K603

b:45.2
occ:1.00
 OG1 A:THR424 2.9 31.4 1.0
O A:ALA420 3.0 32.0 1.0
CG2 A:THR424 3.5 31.4 1.0
CB A:THR424 3.8 31.4 1.0
CG2 A:VAL496 4.0 30.1 1.0
C A:ALA420 4.1 32.0 1.0
CG1 A:VAL496 4.2 30.1 1.0
CA A:ILE421 4.2 33.9 1.0
N A:THR424 4.2 31.4 1.0
K A:K604 4.3 50.4 1.0
C A:ILE421 4.6 33.9 1.0
N A:ILE421 4.6 33.9 1.0
O A:ILE421 4.6 33.9 1.0
CA A:THR424 4.7 31.4 1.0
CB A:VAL496 4.8 30.1 1.0
CD1 A:LEU385 4.8 34.2 1.0
CD A:PRO425 4.9 30.3 1.0

Potassium binding site 4 out of 10 in 7nnl

Go back to Potassium Binding Sites List in 7nnl
Potassium binding site 4 out of 10 in the Cryo-Em Structure of the Kdpfabc Complex in An E1-Atp Conformation Loaded with K+


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of Cryo-Em Structure of the Kdpfabc Complex in An E1-Atp Conformation Loaded with K+ within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K604

b:50.4
occ:1.00
 O A:GLY369 2.9 34.9 1.0
O A:SER378 3.3 32.8 1.0
CA A:GLY382 3.5 33.1 1.0
C A:GLY369 4.1 34.9 1.0
K A:K605 4.2 46.4 1.0
N A:GLY382 4.3 33.1 1.0
K A:K603 4.3 45.2 1.0
C A:SER378 4.4 32.8 1.0
CG1 A:VAL496 4.5 30.1 1.0
C A:GLY382 4.6 33.1 1.0
CA A:GLY369 4.7 34.9 1.0
CB A:SER378 4.7 32.8 1.0
O A:GLU370 4.7 33.2 1.0
CA A:SER378 5.0 32.8 1.0
CG1 A:VAL371 5.0 34.0 1.0
O A:GLY382 5.0 33.1 1.0

Potassium binding site 5 out of 10 in 7nnl

Go back to Potassium Binding Sites List in 7nnl
Potassium binding site 5 out of 10 in the Cryo-Em Structure of the Kdpfabc Complex in An E1-Atp Conformation Loaded with K+


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 5 of Cryo-Em Structure of the Kdpfabc Complex in An E1-Atp Conformation Loaded with K+ within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K605

b:46.4
occ:1.00
 OH A:TYR381 3.0 32.4 1.0
CB A:SER378 3.5 32.8 1.0
CE1 A:TYR381 3.5 32.4 1.0
CZ A:TYR381 3.6 32.4 1.0
CB A:VAL496 4.0 30.1 1.0
O A:GLY492 4.1 27.4 1.0
CG1 A:VAL496 4.2 30.1 1.0
K A:K604 4.2 50.4 1.0
OD1 A:ASN466 4.2 29.1 1.0
OG A:SER378 4.3 32.8 1.0
O A:ARG493 4.4 28.4 1.0
NH1 A:ARG493 4.4 28.4 1.0
CA A:ARG493 4.4 28.4 1.0
CA A:SER378 4.5 32.8 1.0
CG A:ARG493 4.5 28.4 1.0
CG2 A:VAL496 4.6 30.1 1.0
CD1 A:TYR381 4.7 32.4 1.0
C A:ARG493 4.9 28.4 1.0
CE2 A:TYR381 4.9 32.4 1.0
CG1 A:ILE497 5.0 29.4 1.0

Potassium binding site 6 out of 10 in 7nnl

Go back to Potassium Binding Sites List in 7nnl
Potassium binding site 6 out of 10 in the Cryo-Em Structure of the Kdpfabc Complex in An E1-Atp Conformation Loaded with K+


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 6 of Cryo-Em Structure of the Kdpfabc Complex in An E1-Atp Conformation Loaded with K+ within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K606

b:37.9
occ:1.00
 OG A:SER343 3.0 30.9 1.0
ND2 A:ASN112 3.1 29.3 1.0
OG A:SER378 3.2 32.8 1.0
NH1 A:ARG493 3.4 28.4 1.0
O A:ASN466 3.6 29.1 1.0
O A:ASN112 3.6 29.3 1.0
CB A:ASN466 3.9 29.1 1.0
CG A:ASN112 3.9 29.3 1.0
CB A:SER343 3.9 30.9 1.0
CB A:ASN112 3.9 29.3 1.0
CB A:SER378 4.3 32.8 1.0
CA A:GLY375 4.3 31.9 1.0
O A:SER343 4.3 30.9 1.0
CZ A:ARG493 4.5 28.4 1.0
C A:ASN466 4.6 29.1 1.0
C A:ASN112 4.6 29.3 1.0
NH2 A:ARG493 4.7 28.4 1.0
CA A:ASN466 4.9 29.1 1.0
CG A:ASN466 4.9 29.1 1.0
OG1 A:THR230 4.9 29.7 1.0
CA A:ASN112 4.9 29.3 1.0
N A:VAL376 5.0 30.7 1.0
O A:THR111 5.0 28.9 1.0
C A:GLY375 5.0 31.9 1.0
OD1 A:ASN112 5.0 29.3 1.0
OD1 A:ASN466 5.0 29.1 1.0

Potassium binding site 7 out of 10 in 7nnl

Go back to Potassium Binding Sites List in 7nnl
Potassium binding site 7 out of 10 in the Cryo-Em Structure of the Kdpfabc Complex in An E1-Atp Conformation Loaded with K+


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 7 of Cryo-Em Structure of the Kdpfabc Complex in An E1-Atp Conformation Loaded with K+ within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K607

b:30.2
occ:1.00
 O A:ASN112 2.8 29.3 1.0
O A:ASN231 2.8 29.3 1.0
O A:SER343 2.8 30.9 1.0
O A:ASN467 2.8 29.7 1.0
O A:CYS344 2.9 29.6 1.0
O A:THR113 2.9 29.9 1.0
O A:ASN466 3.2 29.1 1.0
C A:THR113 3.4 29.9 1.0
CA A:THR113 3.5 29.9 1.0
C A:ASN467 3.5 29.7 1.0
O A:THR230 3.6 29.7 1.0
C A:ASN112 3.6 29.3 1.0
C A:CYS344 3.7 29.6 1.0
C A:ASN231 3.8 29.3 1.0
CA A:ASN467 3.8 29.7 1.0
C A:SER343 3.8 30.9 1.0
C A:ASN466 3.9 29.1 1.0
N A:THR113 3.9 29.9 1.0
CA A:CYS344 4.1 29.6 1.0
OG A:SER343 4.2 30.9 1.0
N A:ASN467 4.2 29.7 1.0
CA A:ASN231 4.2 29.3 1.0
N A:CYS344 4.4 29.6 1.0
C A:THR230 4.5 29.7 1.0
N A:GLY468 4.5 30.2 1.0
N A:ASN114 4.5 30.9 1.0
N A:GLY345 4.7 29.9 1.0
CB A:ASN114 4.8 30.9 1.0
N A:ASN231 4.8 29.3 1.0
CB A:THR113 4.8 29.9 1.0
N A:GLY232 4.8 30.6 1.0
CA A:ASN112 4.9 29.3 1.0
OD1 A:ASN467 4.9 29.7 1.0
CA A:SER343 5.0 30.9 1.0

Potassium binding site 8 out of 10 in 7nnl

Go back to Potassium Binding Sites List in 7nnl
Potassium binding site 8 out of 10 in the Cryo-Em Structure of the Kdpfabc Complex in An E1-Atp Conformation Loaded with K+


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 8 of Cryo-Em Structure of the Kdpfabc Complex in An E1-Atp Conformation Loaded with K+ within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K608

b:35.9
occ:1.00
 O A:GLY468 2.9 30.2 1.0
O A:GLY232 3.0 30.6 1.0
ND2 A:ASN239 3.0 33.7 1.0
O A:ASN114 3.1 30.9 1.0
O A:GLY345 3.1 29.9 1.0
C A:GLY468 3.8 30.2 1.0
CG A:ASN239 4.0 33.7 1.0
OD1 A:ASN239 4.1 33.7 1.0
C A:ASN114 4.1 30.9 1.0
C A:GLY232 4.1 30.6 1.0
C A:GLY345 4.2 29.9 1.0
CA A:TRP115 4.2 30.8 1.0
N A:GLN116 4.4 33.0 1.0
N A:SER469 4.5 30.9 1.0
CG A:GLN116 4.5 33.0 1.0
CA A:GLY468 4.5 30.2 1.0
N A:TRP115 4.6 30.8 1.0
CA A:SER469 4.6 30.9 1.0
C A:TRP115 4.8 30.8 1.0
CA A:GLY233 4.9 31.9 1.0
CA A:GLY232 4.9 30.6 1.0
CA A:GLY345 4.9 29.9 1.0
N A:GLY233 4.9 31.9 1.0

Potassium binding site 9 out of 10 in 7nnl

Go back to Potassium Binding Sites List in 7nnl
Potassium binding site 9 out of 10 in the Cryo-Em Structure of the Kdpfabc Complex in An E1-Atp Conformation Loaded with K+


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 9 of Cryo-Em Structure of the Kdpfabc Complex in An E1-Atp Conformation Loaded with K+ within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K701

b:42.3
occ:1.00
 CG2 A:ILE421 3.8 33.9 1.0
CB B:ALA227 3.9 33.9 1.0
K A:K601 3.9 47.6 1.0
CD2 A:LEU389 4.0 37.6 1.0
CD2 B:LEU228 4.3 34.3 1.0
C B:ALA227 4.4 33.9 1.0
N B:LEU228 4.4 34.3 1.0
CG B:LEU228 4.5 34.3 1.0
O B:ALA227 4.7 33.9 1.0
CG1 A:VAL538 4.8 38.9 1.0
CA B:ALA227 4.8 33.9 1.0
CA B:LEU228 4.9 34.3 1.0
O B:LEU224 4.9 35.7 1.0
CD1 A:ILE421 4.9 33.9 1.0

Potassium binding site 10 out of 10 in 7nnl

Go back to Potassium Binding Sites List in 7nnl
Potassium binding site 10 out of 10 in the Cryo-Em Structure of the Kdpfabc Complex in An E1-Atp Conformation Loaded with K+


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 10 of Cryo-Em Structure of the Kdpfabc Complex in An E1-Atp Conformation Loaded with K+ within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K703

b:52.0
occ:1.00
 NZ B:LYS586 3.2 36.9 1.0
O B:CYS261 3.6 36.2 1.0
OD1 B:ASP583 3.7 37.9 1.0
O B:ILE263 3.7 35.8 1.0
O B:SER579 3.8 40.3 1.0
OG1 B:THR265 3.9 38.8 1.0
OG1 B:THR266 3.9 39.5 1.0
ND2 B:ASN624 4.0 38.5 1.0
CB B:ASN582 4.2 40.0 1.0
N B:THR265 4.3 38.8 1.0
CA B:SER579 4.5 40.3 1.0
C B:CYS261 4.5 36.2 1.0
ND2 B:ASN582 4.5 40.0 1.0
C B:SER579 4.6 40.3 1.0
CG B:ASN624 4.6 38.5 1.0
O B:LEU262 4.6 35.0 1.0
CA B:PRO264 4.6 36.3 1.0
N B:THR266 4.7 39.5 1.0
CB B:SER579 4.7 40.3 1.0
C B:ILE263 4.7 35.8 1.0
CE B:LYS586 4.7 36.9 1.0
OD1 B:ASN624 4.8 38.5 1.0
CG B:ASP583 4.9 37.9 1.0
CG B:ASN582 4.9 40.0 1.0
CB B:THR266 4.9 39.5 1.0
C B:LEU262 4.9 35.0 1.0
C B:PRO264 5.0 36.3 1.0

Reference:

J.M.Silberberg, R.A.Corey, L.Hielkema, C.Stock, P.J.Stansfeld, C.Paulino, I.Hanelt. Deciphering Ion Transport and Atpase Coupling in the Intersubunit Tunnel of Kdpfabc Biorxiv 2021.
DOI: 10.1101/2021.05.18.444724
Page generated: Sat Aug 21 14:37:10 2021

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy