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Potassium in PDB 7zre: Cryo-Em Map of the Wt Kdpfabc Complex in the E1-P Tight Conformation, Under Turnover Conditions

Enzymatic activity of Cryo-Em Map of the Wt Kdpfabc Complex in the E1-P Tight Conformation, Under Turnover Conditions

All present enzymatic activity of Cryo-Em Map of the Wt Kdpfabc Complex in the E1-P Tight Conformation, Under Turnover Conditions:
7.2.2.6;

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, Under Turnover Conditions (pdb code 7zre). 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, Under Turnover Conditions, PDB code: 7zre:
Jump to Potassium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9;

Potassium binding site 1 out of 9 in 7zre

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Potassium binding site 1 out of 9 in the Cryo-Em Map of the Wt Kdpfabc Complex in the E1-P Tight Conformation, Under Turnover Conditions


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, Under Turnover Conditions within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K601

b:23.7
occ:1.00
 OG1 A:THR542 3.3 19.0 1.0
CG1 A:VAL538 3.4 20.7 1.0
CG A:PRO425 3.5 15.8 1.0
CB A:THR542 4.0 19.0 1.0
O A:ILE368 4.1 16.9 1.0
O A:VAL538 4.1 20.7 1.0
CG2 A:THR542 4.3 19.0 1.0
K A:K602 4.3 35.3 1.0
C A:VAL538 4.4 20.7 1.0
CB A:PRO425 4.5 15.8 1.0
CZ A:PHE386 4.6 18.7 1.0
CA A:GLY539 4.6 19.7 1.0
N A:GLY539 4.6 19.7 1.0
CD A:PRO425 4.6 15.8 1.0
O A:GLN367 4.7 15.4 1.0
C A:ILE368 4.7 16.9 1.0
CB A:VAL538 4.7 20.7 1.0
O A:ILE421 4.7 16.5 1.0
CG2 A:ILE421 4.7 16.5 1.0
CE2 A:PHE543 4.8 17.5 1.0
CA A:ILE368 5.0 16.9 1.0

Potassium binding site 2 out of 9 in 7zre

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Potassium binding site 2 out of 9 in the Cryo-Em Map of the Wt Kdpfabc Complex in the E1-P Tight Conformation, Under Turnover Conditions


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, Under Turnover Conditions within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K602

b:35.3
occ:1.00
 OG1 A:THR424 3.2 16.1 1.0
O A:ILE421 3.6 16.5 1.0
CA A:GLY369 3.8 17.4 1.0
O A:ILE368 4.0 16.9 1.0
CA A:ILE421 4.0 16.5 1.0
CD A:PRO425 4.0 15.8 1.0
C A:ILE421 4.2 16.5 1.0
CG2 A:ILE421 4.2 16.5 1.0
K A:K601 4.3 23.7 1.0
CG A:PRO425 4.4 15.8 1.0
CE2 A:PHE386 4.4 18.7 1.0
CZ A:PHE386 4.4 18.7 1.0
CB A:ILE421 4.6 16.5 1.0
O A:ALA420 4.6 16.6 1.0
N A:GLY369 4.6 17.4 1.0
C A:ILE368 4.7 16.9 1.0
CB A:THR424 4.7 16.1 1.0
CG1 A:ILE421 4.8 16.5 1.0
K A:K603 4.8 37.9 1.0
C A:GLY369 5.0 17.4 1.0

Potassium binding site 3 out of 9 in 7zre

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Potassium binding site 3 out of 9 in the Cryo-Em Map of the Wt Kdpfabc Complex in the E1-P Tight Conformation, Under Turnover Conditions


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, Under Turnover Conditions within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K603

b:37.9
occ:1.00
 O A:GLY369 3.0 17.4 1.0
K A:K604 3.1 21.4 1.0
C A:GLY369 4.1 17.4 1.0
CG1 A:VAL496 4.1 13.8 1.0
CG2 A:VAL496 4.4 13.8 1.0
CA A:GLY369 4.5 17.4 1.0
OG1 A:THR424 4.6 16.1 1.0
CG2 A:THR424 4.6 16.1 1.0
ND2 A:ASN465 4.7 13.6 1.0
CB A:VAL496 4.7 13.8 1.0
K A:K602 4.8 35.3 1.0
K A:K605 4.8 33.7 1.0
O A:SER378 4.9 17.3 1.0
CA A:GLY382 4.9 17.4 1.0

Potassium binding site 4 out of 9 in 7zre

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Potassium binding site 4 out of 9 in the Cryo-Em Map of the Wt Kdpfabc Complex in the E1-P Tight Conformation, Under Turnover Conditions


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, Under Turnover Conditions within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K604

b:21.4
occ:1.00
 K A:K603 3.1 37.9 1.0
OD1 A:ASN466 3.4 14.3 1.0
K A:K605 3.4 33.7 1.0
CG A:ASN466 4.0 14.3 1.0
O A:ASN465 4.2 13.6 1.0
CG2 A:THR424 4.3 16.1 1.0
C A:ASN465 4.3 13.6 1.0
CB A:ASN466 4.4 14.3 1.0
CG2 A:VAL496 4.5 13.8 1.0
O A:ALA464 4.5 12.9 1.0
CA A:ASN465 4.5 13.6 1.0
CB A:VAL496 4.7 13.8 1.0
O A:GLY492 4.7 13.2 1.0
ND2 A:ASN465 4.8 13.6 1.0
CG1 A:VAL496 4.8 13.8 1.0
N A:ASN466 4.9 14.3 1.0
O A:GLY369 4.9 17.4 1.0
C A:GLY492 4.9 13.2 1.0
CA A:ARG493 4.9 13.5 1.0
ND2 A:ASN466 5.0 14.3 1.0

Potassium binding site 5 out of 9 in 7zre

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Potassium binding site 5 out of 9 in the Cryo-Em Map of the Wt Kdpfabc Complex in the E1-P Tight Conformation, Under Turnover Conditions


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, Under Turnover Conditions within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K605

b:33.7
occ:1.00
 OG A:SER343 3.2 15.4 1.0
CB A:SER378 3.3 17.3 1.0
K A:K604 3.4 21.4 1.0
O A:ASN465 3.6 13.6 1.0
CB A:ASN466 3.8 14.3 1.0
CB A:SER343 3.9 15.4 1.0
OG A:SER378 4.0 17.3 1.0
CB A:GLU370 4.3 15.9 1.0
OD1 A:ASN466 4.3 14.3 1.0
CA A:GLY375 4.3 15.4 1.0
C A:ASN465 4.5 13.6 1.0
CG A:ASN466 4.6 14.3 1.0
CA A:SER378 4.6 17.3 1.0
O A:ASN466 4.6 14.3 1.0
N A:GLY375 4.6 15.4 1.0
O A:GLU370 4.6 15.9 1.0
C A:SER378 4.6 17.3 1.0
N A:GLY379 4.8 16.6 1.0
CA A:ASN466 4.8 14.3 1.0
K A:K603 4.8 37.9 1.0
CG A:GLU370 4.9 15.9 1.0
C A:ASN466 5.0 14.3 1.0

Potassium binding site 6 out of 9 in 7zre

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Potassium binding site 6 out of 9 in the Cryo-Em Map of the Wt Kdpfabc Complex in the E1-P Tight Conformation, Under Turnover Conditions


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, Under Turnover Conditions within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K606

b:14.3
occ:1.00
 O A:ASN231 2.8 14.6 1.0
O A:ASN112 2.8 14.6 1.0
O A:ASN467 2.9 14.4 1.0
O A:SER343 2.9 15.4 1.0
O A:ASN466 2.9 14.3 1.0
O A:THR113 3.0 13.8 1.0
CA A:THR113 3.5 13.8 1.0
C A:THR113 3.5 13.8 1.0
C A:ASN467 3.6 14.4 1.0
C A:SER343 3.6 15.4 1.0
O A:THR230 3.6 15.1 1.0
C A:ASN112 3.6 14.6 1.0
C A:ASN466 3.8 14.3 1.0
C A:ASN231 3.8 14.6 1.0
CA A:ASN467 3.9 14.4 1.0
N A:THR113 3.9 13.8 1.0
OD1 A:ASN112 4.1 14.6 1.0
CA A:CYS344 4.1 15.5 1.0
N A:CYS344 4.2 15.5 1.0
OD1 A:ASN114 4.2 14.7 1.0
N A:GLY345 4.2 15.4 1.0
N A:ASN467 4.2 14.4 1.0
CA A:ASN231 4.3 14.6 1.0
CB A:SER343 4.5 15.4 1.0
CA A:SER343 4.5 15.4 1.0
C A:CYS344 4.5 15.5 1.0
C A:THR230 4.6 15.1 1.0
N A:ASN114 4.6 14.7 1.0
N A:GLY468 4.6 14.7 1.0
CB A:ASN114 4.8 14.7 1.0
CB A:THR113 4.8 13.8 1.0
CG A:ASN112 4.9 14.6 1.0
N A:ASN231 4.9 14.6 1.0
CA A:ASN112 4.9 14.6 1.0
OD1 A:ASN467 4.9 14.4 1.0
CG A:ASN114 4.9 14.7 1.0
N A:GLY232 4.9 15.2 1.0
CA A:ASN466 5.0 14.3 1.0
CG2 A:THR113 5.0 13.8 1.0

Potassium binding site 7 out of 9 in 7zre

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Potassium binding site 7 out of 9 in the Cryo-Em Map of the Wt Kdpfabc Complex in the E1-P Tight Conformation, Under Turnover Conditions


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, Under Turnover Conditions within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K607

b:17.1
occ:1.00
 O A:ASN114 3.0 14.7 1.0
ND2 A:ASN239 3.1 16.7 1.0
O A:GLY232 3.2 15.2 1.0
OE1 A:GLN116 3.3 16.7 1.0
OD1 A:ASN239 3.4 16.7 1.0
CG A:ASN239 3.4 16.7 1.0
O A:GLY468 3.5 14.7 1.0
CD A:GLN116 3.8 16.7 1.0
CG A:GLN116 3.8 16.7 1.0
CB A:GLN116 3.9 16.7 1.0
N A:GLN116 3.9 16.7 1.0
O A:GLY345 4.0 15.4 1.0
C A:ASN114 4.2 14.7 1.0
C A:GLY232 4.3 15.2 1.0
C A:TRP115 4.4 14.8 1.0
CA A:TRP115 4.4 14.8 1.0
C A:GLY468 4.5 14.7 1.0
C A:GLY345 4.5 15.4 1.0
CA A:GLN116 4.5 16.7 1.0
CB A:ASN239 4.6 16.7 1.0
CA A:GLY345 4.6 15.4 1.0
CA A:GLY233 4.7 15.4 1.0
N A:TRP115 4.7 14.8 1.0
N A:GLY234 4.8 16.4 1.0
NE2 A:GLN116 4.9 16.7 1.0

Potassium binding site 8 out of 9 in 7zre

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Potassium binding site 8 out of 9 in the Cryo-Em Map of the Wt Kdpfabc Complex in the E1-P Tight Conformation, Under Turnover Conditions


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, Under Turnover Conditions within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K701

b:32.2
occ:1.00
 CB B:ALA227 3.7 19.8 1.0
CD2 B:LEU228 4.1 20.5 1.0
CD1 A:LEU389 4.3 21.1 1.0
CD2 A:LEU389 4.4 21.1 1.0
N B:LEU228 4.4 20.5 1.0
CG B:LEU228 4.4 20.5 1.0
C B:ALA227 4.5 19.8 1.0
CG2 A:ILE421 4.5 16.5 1.0
O B:LEU224 4.5 22.0 1.0
CA B:ALA227 4.7 19.8 1.0
CG B:LEU224 4.9 22.0 1.0
O B:ALA227 4.9 19.8 1.0
CA B:LEU228 4.9 20.5 1.0
CG A:LEU389 5.0 21.1 1.0

Potassium binding site 9 out of 9 in 7zre

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Potassium binding site 9 out of 9 in the Cryo-Em Map of the Wt Kdpfabc Complex in the E1-P Tight Conformation, Under Turnover Conditions


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, Under Turnover Conditions within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K702

b:27.7
occ:1.00
 O B:ILE263 3.0 21.3 1.0
ND2 B:ASN624 3.0 26.9 1.0
O B:CYS261 3.3 22.8 1.0
NZ B:LYS586 3.7 24.2 1.0
OD1 B:ASP583 3.9 25.8 1.0
OG1 B:THR265 3.9 23.8 1.0
N B:THR265 3.9 23.8 1.0
C B:ILE263 4.0 21.3 1.0
C B:CYS261 4.1 22.8 1.0
CG B:ASN624 4.1 26.9 1.0
CA B:PRO264 4.2 22.2 1.0
O B:LEU262 4.3 21.2 1.0
C B:LEU262 4.4 21.2 1.0
O B:VAL260 4.5 22.1 1.0
O B:SER579 4.5 26.0 1.0
N B:PRO264 4.5 22.2 1.0
C B:PRO264 4.6 22.2 1.0
N B:LEU262 4.7 21.2 1.0
N B:ILE263 4.8 21.3 1.0
CB B:THR265 4.8 23.8 1.0
CA B:CYS261 4.8 22.8 1.0
CG2 B:THR265 4.8 23.8 1.0
CA B:LEU262 4.8 21.2 1.0
OD1 B:ASN624 4.9 26.9 1.0
CA B:THR265 4.9 23.8 1.0
OG1 B:THR266 4.9 25.4 1.0
CB B:ASN624 4.9 26.9 1.0
CG B:ASP583 5.0 25.8 1.0
N B:THR266 5.0 25.4 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 21:52:38 2024

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