Atomistry » Rubidium » PDB 5aw4-7w49 » 7nnp
Atomistry »
  Rubidium »
    PDB 5aw4-7w49 »
      7nnp »

Rubidium in PDB 7nnp: Rb-Loaded Cryo-Em Structure of the E1-Atp Kdpfabc Complex.

Enzymatic activity of Rb-Loaded Cryo-Em Structure of the E1-Atp Kdpfabc Complex.

All present enzymatic activity of Rb-Loaded Cryo-Em Structure of the E1-Atp Kdpfabc Complex.:
7.2.2.6;

Rubidium Binding Sites:

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

Rubidium binding site 1 out of 8 in 7nnp

Go back to Rubidium Binding Sites List in 7nnp
Rubidium binding site 1 out of 8 in the Rb-Loaded Cryo-Em Structure of the E1-Atp Kdpfabc Complex.


Mono view


Stereo pair view

A full contact list of Rubidium with other atoms in the Rb binding site number 1 of Rb-Loaded Cryo-Em Structure of the E1-Atp Kdpfabc Complex. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Rb601

b:74.6
occ:1.00
 CG2 A:ILE421 3.4 18.2 1.0
CG1 A:VAL538 3.4 23.7 1.0
CG1 B:VAL231 3.9 17.8 1.0
RB A:RB602 4.0 61.4 1.0
RB B:RB701 4.1 81.7 1.0
OG1 A:THR542 4.2 19.4 1.0
CG2 B:VAL231 4.5 17.8 1.0
CB B:VAL231 4.6 17.8 1.0
CG A:PRO425 4.7 17.5 1.0
CB A:VAL538 4.8 23.7 1.0
CB A:ILE421 4.8 18.2 1.0
O A:ILE421 4.9 18.2 1.0

Rubidium binding site 2 out of 8 in 7nnp

Go back to Rubidium Binding Sites List in 7nnp
Rubidium binding site 2 out of 8 in the Rb-Loaded Cryo-Em Structure of the E1-Atp Kdpfabc Complex.


Mono view


Stereo pair view

A full contact list of Rubidium with other atoms in the Rb binding site number 2 of Rb-Loaded Cryo-Em Structure of the E1-Atp Kdpfabc Complex. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Rb602

b:61.4
occ:1.00
 CG A:PRO425 3.8 17.5 1.0
O A:ILE368 3.8 19.4 1.0
O A:GLN367 3.9 18.1 1.0
RB A:RB601 4.0 74.6 1.0
CZ A:PHE386 4.0 20.9 1.0
CG1 A:VAL538 4.0 23.7 1.0
C A:ILE368 4.1 19.4 1.0
CA A:ILE368 4.4 19.4 1.0
CD A:PRO425 4.6 17.5 1.0
OG1 A:THR542 4.6 19.4 1.0
CE2 A:PHE543 4.7 18.3 1.0
CE1 A:PHE386 4.7 20.9 1.0
N A:GLY369 4.8 21.6 1.0
CG2 A:ILE421 4.8 18.2 1.0
CA A:GLY539 4.8 21.6 1.0
CE2 A:PHE386 4.9 20.9 1.0
C A:GLN367 4.9 18.1 1.0
CB A:PRO425 5.0 17.5 1.0

Rubidium binding site 3 out of 8 in 7nnp

Go back to Rubidium Binding Sites List in 7nnp
Rubidium binding site 3 out of 8 in the Rb-Loaded Cryo-Em Structure of the E1-Atp Kdpfabc Complex.


Mono view


Stereo pair view

A full contact list of Rubidium with other atoms in the Rb binding site number 3 of Rb-Loaded Cryo-Em Structure of the E1-Atp Kdpfabc Complex. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Rb603

b:93.1
occ:1.00
 O A:GLY369 3.0 21.6 1.0
C A:GLY369 4.0 21.6 1.0
CA A:GLY382 4.1 20.0 1.0
CA A:GLY369 4.2 21.6 1.0
CG1 A:VAL496 4.5 14.7 1.0
RB A:RB604 4.7 75.4 1.0
O A:SER378 4.7 18.8 1.0
CG2 A:THR424 4.8 17.6 1.0
OG1 A:THR424 4.9 17.6 1.0

Rubidium binding site 4 out of 8 in 7nnp

Go back to Rubidium Binding Sites List in 7nnp
Rubidium binding site 4 out of 8 in the Rb-Loaded Cryo-Em Structure of the E1-Atp Kdpfabc Complex.


Mono view


Stereo pair view

A full contact list of Rubidium with other atoms in the Rb binding site number 4 of Rb-Loaded Cryo-Em Structure of the E1-Atp Kdpfabc Complex. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Rb604

b:75.4
occ:1.00
 O A:ASN465 3.0 17.7 1.0
OG A:SER378 3.3 18.8 1.0
CB A:GLU370 3.7 20.2 1.0
CG A:GLU370 3.8 20.2 1.0
OG A:SER343 3.8 19.4 1.0
C A:ASN465 3.9 17.7 1.0
CB A:SER343 4.0 19.4 1.0
CB A:SER378 4.0 18.8 1.0
CB A:ASN466 4.1 18.4 1.0
OD1 A:ASN466 4.3 18.4 1.0
O A:GLY369 4.4 21.6 1.0
CG A:ASN466 4.7 18.4 1.0
CA A:ASN465 4.7 17.7 1.0
RB A:RB603 4.7 93.1 1.0
N A:ASN466 4.7 18.4 1.0
CA A:ASN466 4.8 18.4 1.0
RB A:RB605 4.9 41.1 1.0
CD A:GLU370 4.9 20.2 1.0
O A:GLU370 4.9 20.2 1.0
N A:GLY375 4.9 18.9 1.0
O A:ASN466 5.0 18.4 1.0

Rubidium binding site 5 out of 8 in 7nnp

Go back to Rubidium Binding Sites List in 7nnp
Rubidium binding site 5 out of 8 in the Rb-Loaded Cryo-Em Structure of the E1-Atp Kdpfabc Complex.


Mono view


Stereo pair view

A full contact list of Rubidium with other atoms in the Rb binding site number 5 of Rb-Loaded Cryo-Em Structure of the E1-Atp Kdpfabc Complex. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Rb605

b:41.1
occ:1.00
 OG A:SER343 2.8 19.4 1.0
ND2 A:ASN112 2.9 17.5 1.0
O A:SER343 3.4 19.4 1.0
O A:ASN466 3.5 18.4 1.0
O A:ASN112 3.5 17.5 1.0
CG A:ASN112 3.5 17.5 1.0
CB A:ASN112 3.9 17.5 1.0
CB A:SER343 3.9 19.4 1.0
OG1 A:THR230 3.9 17.7 1.0
O A:THR230 4.0 17.7 1.0
RB A:RB606 4.1 26.5 1.0
CA A:GLY375 4.1 18.9 1.0
NH1 A:ARG493 4.2 15.2 1.0
OG A:SER378 4.2 18.8 1.0
CB A:ASN466 4.2 18.4 1.0
C A:ASN112 4.3 17.5 1.0
OD1 A:ASN112 4.4 17.5 1.0
C A:SER343 4.5 19.4 1.0
C A:ASN466 4.6 18.4 1.0
N A:VAL376 4.6 17.5 1.0
CA A:ASN112 4.7 17.5 1.0
CA A:SER343 4.8 19.4 1.0
C A:GLY375 4.8 18.9 1.0
RB A:RB604 4.9 75.4 1.0

Rubidium binding site 6 out of 8 in 7nnp

Go back to Rubidium Binding Sites List in 7nnp
Rubidium binding site 6 out of 8 in the Rb-Loaded Cryo-Em Structure of the E1-Atp Kdpfabc Complex.


Mono view


Stereo pair view

A full contact list of Rubidium with other atoms in the Rb binding site number 6 of Rb-Loaded Cryo-Em Structure of the E1-Atp Kdpfabc Complex. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Rb606

b:26.5
occ:1.00
 O A:ASN112 2.8 17.5 1.0
O A:CYS344 2.8 18.1 1.0
O A:SER343 2.8 19.4 1.0
O A:ASN467 2.8 17.7 1.0
O A:THR113 3.1 17.6 1.0
O A:THR230 3.1 17.7 1.0
O A:ASN466 3.3 18.4 1.0
N A:ASP232 3.5 18.0 1.0
C A:CYS344 3.6 18.1 1.0
C A:THR113 3.7 17.6 1.0
CA A:ASN231 3.7 17.5 1.0
C A:ASN467 3.8 17.7 1.0
C A:SER343 3.9 19.4 1.0
C A:ASN112 3.9 17.5 1.0
C A:ASN231 3.9 17.5 1.0
CA A:THR113 3.9 17.6 1.0
CA A:CYS344 4.0 18.1 1.0
RB A:RB605 4.1 41.1 1.0
C A:THR230 4.1 17.7 1.0
OG A:SER343 4.3 19.4 1.0
CA A:ASN467 4.3 17.7 1.0
C A:ASN466 4.3 18.4 1.0
N A:ASN231 4.3 17.5 1.0
N A:CYS344 4.4 18.1 1.0
N A:THR113 4.4 17.6 1.0
CB A:ASP232 4.4 18.0 1.0
OD1 A:ASN114 4.5 17.6 1.0
CA A:ASP232 4.5 18.0 1.0
N A:GLY345 4.6 17.4 1.0
N A:ASN114 4.6 17.6 1.0
CB A:ASN114 4.7 17.6 1.0
N A:ASN467 4.7 17.7 1.0
CB A:ASN231 4.8 17.5 1.0
N A:GLY468 4.8 17.8 1.0
CG A:ASN114 4.8 17.6 1.0
O A:ASN231 4.9 17.5 1.0

Rubidium binding site 7 out of 8 in 7nnp

Go back to Rubidium Binding Sites List in 7nnp
Rubidium binding site 7 out of 8 in the Rb-Loaded Cryo-Em Structure of the E1-Atp Kdpfabc Complex.


Mono view


Stereo pair view

A full contact list of Rubidium with other atoms in the Rb binding site number 7 of Rb-Loaded Cryo-Em Structure of the E1-Atp Kdpfabc Complex. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Rb701

b:81.7
occ:1.00
 CD1 A:LEU389 3.8 21.7 1.0
CG B:LEU228 3.9 18.5 1.0
CD2 B:LEU228 4.0 18.5 1.0
RB A:RB601 4.1 74.6 1.0
CD1 B:LEU228 4.5 18.5 1.0
CB B:ALA227 4.7 17.6 1.0
CG2 A:VAL538 4.8 23.7 1.0
C67 B:CDL703 4.8 34.7 1.0
O B:LEU224 4.8 19.5 1.0
N B:LEU228 4.9 18.5 1.0
CD2 B:LEU224 4.9 19.5 1.0

Rubidium binding site 8 out of 8 in 7nnp

Go back to Rubidium Binding Sites List in 7nnp
Rubidium binding site 8 out of 8 in the Rb-Loaded Cryo-Em Structure of the E1-Atp Kdpfabc Complex.


Mono view


Stereo pair view

A full contact list of Rubidium with other atoms in the Rb binding site number 8 of Rb-Loaded Cryo-Em Structure of the E1-Atp Kdpfabc Complex. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Rb704

b:39.3
occ:1.00
 O B:ILE263 2.9 19.0 1.0
ND2 B:ASN624 3.0 21.9 1.0
OG1 B:THR265 3.3 22.0 1.0
O B:CYS261 3.4 20.0 1.0
N B:THR265 3.7 22.0 1.0
NZ B:LYS586 4.0 20.2 1.0
C B:CYS261 4.0 20.0 1.0
O B:VAL260 4.0 19.6 1.0
C B:ILE263 4.0 19.0 1.0
CG B:ASN624 4.1 21.9 1.0
CB B:THR265 4.3 22.0 1.0
CA B:PRO264 4.4 19.9 1.0
OD1 B:ASP583 4.4 21.8 1.0
O B:LEU262 4.4 19.0 1.0
CG2 B:THR265 4.4 22.0 1.0
C B:LEU262 4.5 19.0 1.0
OD1 B:ASN624 4.5 21.9 1.0
C B:PRO264 4.6 19.9 1.0
CA B:THR265 4.6 22.0 1.0
CA B:CYS261 4.6 20.0 1.0
N B:PRO264 4.7 19.9 1.0
N B:LEU262 4.7 19.0 1.0
N B:THR266 4.7 24.0 1.0
N B:ILE263 4.7 19.0 1.0
OG1 B:THR266 4.8 24.0 1.0
O B:SER579 4.8 24.2 1.0
CA B:LEU262 5.0 19.0 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: Thu Oct 10 12:18:44 2024

Last articles

Zn in 9MJ5
Zn in 9HNW
Zn in 9G0L
Zn in 9FNE
Zn in 9DZN
Zn in 9E0I
Zn in 9D32
Zn in 9DAK
Zn in 8ZXC
Zn in 8ZUF
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy