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Potassium in PDB 5mrw: Structure of the Kdpfabc Complex

Enzymatic activity of Structure of the Kdpfabc Complex

All present enzymatic activity of Structure of the Kdpfabc Complex:
3.6.3.12;

Protein crystallography data

The structure of Structure of the Kdpfabc Complex, PDB code: 5mrw was solved by C.Huang, B.P.Pedersen, D.L.Stokes, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 2.90
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 124.720, 166.290, 196.300, 90.00, 107.41, 90.00
R / Rfree (%) 24.3 / 27.5

Potassium Binding Sites:

The binding sites of Potassium atom in the Structure of the Kdpfabc Complex (pdb code 5mrw). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 3 binding sites of Potassium where determined in the Structure of the Kdpfabc Complex, PDB code: 5mrw:
Jump to Potassium binding site number: 1; 2; 3;

Potassium binding site 1 out of 3 in 5mrw

Go back to Potassium Binding Sites List in 5mrw
Potassium binding site 1 out of 3 in the Structure of the Kdpfabc Complex


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Structure of the Kdpfabc Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K601

b:0.6
occ:1.00
 O A:ASN112 2.7 0.5 1.0
O A:SER343 2.7 98.9 1.0
O A:CYS344 2.8 91.0 1.0
O A:ASN467 2.9 0.1 1.0
O A:ASN231 2.9 0.1 1.0
O A:THR230 2.9 81.6 1.0
O A:THR113 3.0 0.8 1.0
O A:ASN466 3.2 0.3 1.0
C A:CYS344 3.5 94.6 1.0
CA A:THR113 3.5 0.8 1.0
C A:THR113 3.5 0.3 1.0
C A:ASN231 3.6 0.4 1.0
C A:ASN112 3.7 0.4 1.0
C A:ASN467 3.8 0.5 1.0
C A:SER343 3.9 97.2 1.0
CA A:ASN231 3.9 0.3 1.0
C A:THR230 4.0 90.2 1.0
CA A:CYS344 4.0 95.7 1.0
N A:THR113 4.1 0.7 1.0
OG A:SER343 4.3 0.7 1.0
C A:ASN466 4.3 0.1 1.0
CA A:ASN467 4.4 0.7 1.0
N A:ASN231 4.4 95.4 1.0
N A:CYS344 4.4 95.3 1.0
N A:GLY345 4.4 97.7 1.0
N A:GLY232 4.6 0.5 1.0
N A:GLY468 4.6 0.6 1.0
N A:ASN114 4.7 0.1 1.0
CB A:THR113 4.8 0.7 1.0
CA A:GLY345 4.8 95.7 1.0
N A:ASN467 4.9 0.7 1.0
CG2 A:THR113 4.9 0.6 1.0
CA A:GLY468 4.9 0.2 1.0
CG A:ASN112 5.0 0.6 1.0
OD1 A:ASN112 5.0 0.7 1.0

Potassium binding site 2 out of 3 in 5mrw

Go back to Potassium Binding Sites List in 5mrw
Potassium binding site 2 out of 3 in the Structure of the Kdpfabc Complex


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Structure of the Kdpfabc Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
E:K601

b:0.3
occ:1.00
 O E:ASN112 2.7 0.7 1.0
O E:SER343 2.7 78.8 1.0
O E:CYS344 2.8 97.7 1.0
O E:ASN231 2.9 0.8 1.0
O E:ASN467 2.9 97.0 1.0
O E:THR230 3.0 91.4 1.0
O E:THR113 3.1 0.2 1.0
O E:ASN466 3.2 0.1 1.0
C E:CYS344 3.5 1.0 1.0
C E:ASN231 3.6 0.3 1.0
C E:THR113 3.6 0.0 1.0
CA E:THR113 3.7 0.3 1.0
C E:ASN112 3.8 1.0 1.0
C E:ASN467 3.8 0.0 1.0
C E:SER343 3.8 91.0 1.0
CA E:ASN231 4.0 0.7 1.0
CA E:CYS344 4.0 98.8 1.0
C E:THR230 4.0 95.8 1.0
N E:THR113 4.2 0.0 1.0
OG E:SER343 4.2 0.9 1.0
C E:ASN466 4.3 0.5 1.0
CA E:ASN467 4.4 0.7 1.0
N E:CYS344 4.4 90.6 1.0
N E:GLY345 4.4 0.3 1.0
N E:ASN231 4.5 0.4 1.0
N E:GLY232 4.6 0.4 1.0
N E:GLY468 4.7 1.0 1.0
N E:ASN114 4.8 0.6 1.0
CA E:GLY345 4.8 0.6 1.0
N E:ASN467 4.9 0.7 1.0
CG E:ASN112 4.9 0.3 1.0
OD1 E:ASN112 4.9 0.2 1.0
CA E:GLY468 4.9 1.0 1.0
CB E:THR113 5.0 1.0 1.0
ND2 E:ASN112 5.0 0.7 1.0

Potassium binding site 3 out of 3 in 5mrw

Go back to Potassium Binding Sites List in 5mrw
Potassium binding site 3 out of 3 in the Structure of the Kdpfabc Complex


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Structure of the Kdpfabc Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
I:K601

b:0.5
occ:1.00
 O I:ASN112 2.7 0.1 1.0
O I:SER343 2.7 0.1 1.0
O I:CYS344 2.9 0.5 1.0
O I:ASN467 2.9 0.7 1.0
O I:ASN231 3.0 0.5 1.0
O I:THR230 3.0 0.8 1.0
O I:THR113 3.0 0.5 1.0
O I:ASN466 3.2 0.9 1.0
CA I:THR113 3.5 0.6 1.0
C I:THR113 3.5 0.8 1.0
C I:CYS344 3.6 0.0 1.0
C I:ASN231 3.6 0.7 1.0
C I:ASN467 3.7 0.8 1.0
C I:ASN112 3.8 0.1 1.0
C I:SER343 3.9 0.1 1.0
CA I:ASN231 3.9 0.1 1.0
C I:THR230 4.0 0.3 1.0
CA I:CYS344 4.1 99.7 1.0
N I:THR113 4.1 0.9 1.0
OG I:SER343 4.3 0.8 1.0
C I:ASN466 4.3 0.9 1.0
CA I:ASN467 4.3 0.9 1.0
N I:ASN231 4.4 0.5 1.0
N I:GLY345 4.5 0.1 1.0
N I:CYS344 4.5 96.6 1.0
N I:GLY468 4.6 0.5 1.0
N I:GLY232 4.6 0.6 1.0
N I:ASN114 4.7 0.2 1.0
CB I:THR113 4.8 0.4 1.0
CA I:GLY345 4.8 0.3 1.0
N I:ASN467 4.8 0.6 1.0
CG2 I:THR113 4.9 0.2 1.0
CA I:GLY468 4.9 0.9 1.0
CG I:ASN112 5.0 0.9 1.0

Reference:

C.S.Huang, B.P.Pedersen, D.L.Stokes. Crystal Structure of the Potassium-Importing Kdpfabc Membrane Complex. Nature V. 546 681 2017.
ISSN: ESSN 1476-4687
PubMed: 28636601
DOI: 10.1038/NATURE22970
Page generated: Mon Dec 14 00:05:55 2020

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