Atomistry » Potassium » PDB 3f2y-3gvf » 3fd5
Atomistry »
  Potassium »
    PDB 3f2y-3gvf »
      3fd5 »

Potassium in PDB 3fd5: Crystal Structure of Human Selenophosphate Synthetase 1 Complex with Ampcp

Enzymatic activity of Crystal Structure of Human Selenophosphate Synthetase 1 Complex with Ampcp

All present enzymatic activity of Crystal Structure of Human Selenophosphate Synthetase 1 Complex with Ampcp:
2.7.9.3;

Protein crystallography data

The structure of Crystal Structure of Human Selenophosphate Synthetase 1 Complex with Ampcp, PDB code: 3fd5 was solved by K.T.Wang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 14.93 / 1.90
Space group P 43
Cell size a, b, c (Å), α, β, γ (°) 66.734, 66.734, 181.168, 90.00, 90.00, 90.00
R / Rfree (%) 13.8 / 19.5

Other elements in 3fd5:

The structure of Crystal Structure of Human Selenophosphate Synthetase 1 Complex with Ampcp also contains other interesting chemical elements:

Magnesium (Mg) 6 atoms

Potassium Binding Sites:

The binding sites of Potassium atom in the Crystal Structure of Human Selenophosphate Synthetase 1 Complex with Ampcp (pdb code 3fd5). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 2 binding sites of Potassium where determined in the Crystal Structure of Human Selenophosphate Synthetase 1 Complex with Ampcp, PDB code: 3fd5:
Jump to Potassium binding site number: 1; 2;

Potassium binding site 1 out of 2 in 3fd5

Go back to Potassium Binding Sites List in 3fd5
Potassium binding site 1 out of 2 in the Crystal Structure of Human Selenophosphate Synthetase 1 Complex with Ampcp


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Crystal Structure of Human Selenophosphate Synthetase 1 Complex with Ampcp within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K398

b:26.3
occ:1.00
O A:ASP69 2.9 17.8 1.0
O A:HOH659 3.0 20.0 1.0
OG1 A:THR85 3.0 24.7 1.0
OD2 A:ASP110 3.1 13.8 1.0
O A:HOH658 3.1 20.7 1.0
O1B A:AP2393 3.1 21.7 1.0
O3B A:AP2393 3.4 25.7 1.0
CG A:ASP110 3.5 18.3 1.0
PB A:AP2393 3.6 22.0 1.0
C3A A:AP2393 3.7 11.7 1.0
C A:ASP69 3.9 18.5 1.0
O A:THR86 3.9 27.5 1.0
OD2 A:ASP87 3.9 29.9 1.0
OD1 A:ASP110 4.0 20.9 1.0
MG A:MG396 4.1 25.5 1.0
CB A:ASP110 4.1 18.5 1.0
CB A:THR85 4.1 24.4 1.0
MG A:MG397 4.2 31.7 1.0
O A:HOH401 4.3 19.3 1.0
O2' A:AP2393 4.3 22.7 1.0
CA A:ASP69 4.3 21.5 1.0
N A:THR86 4.5 20.3 1.0
O A:MET68 4.5 20.3 1.0
CG A:ASP87 4.6 27.1 1.0
OD1 A:ASP87 4.6 22.5 1.0
CA A:THR85 4.6 27.1 1.0
O B:GLY162 4.7 28.1 1.0
C2' A:AP2393 4.8 20.9 1.0
MG A:MG395 4.9 23.2 1.0
C A:THR86 4.9 27.6 1.0
O1A A:AP2393 5.0 20.4 1.0

Potassium binding site 2 out of 2 in 3fd5

Go back to Potassium Binding Sites List in 3fd5
Potassium binding site 2 out of 2 in the Crystal Structure of Human Selenophosphate Synthetase 1 Complex with Ampcp


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Crystal Structure of Human Selenophosphate Synthetase 1 Complex with Ampcp within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K398

b:20.2
occ:1.00
OG1 B:THR85 2.9 23.3 1.0
O B:ASP69 3.1 26.5 1.0
OD2 B:ASP110 3.1 34.3 1.0
O B:HOH417 3.1 20.0 1.0
O2B B:AP2393 3.1 28.5 1.0
O B:HOH660 3.1 27.0 1.0
O A:HOH661 3.2 23.8 1.0
CG B:ASP110 3.4 30.3 1.0
O1B B:AP2393 3.4 24.1 1.0
O B:THR86 3.5 19.6 1.0
OD2 B:ASP87 3.5 23.1 1.0
PB B:AP2393 3.6 27.2 1.0
MG B:MG396 3.7 27.3 1.0
C3A B:AP2393 3.9 28.3 1.0
CB B:ASP110 3.9 22.6 1.0
CB B:THR85 4.0 20.2 1.0
C B:ASP69 4.0 24.9 1.0
OD1 B:ASP110 4.0 25.7 1.0
CG B:ASP87 4.1 28.0 1.0
MG B:MG397 4.1 23.6 1.0
OD1 B:ASP87 4.2 20.7 1.0
N B:THR86 4.3 18.6 1.0
CA B:ASP69 4.4 21.2 1.0
C B:THR86 4.5 20.3 1.0
CA B:THR85 4.6 17.2 1.0
O B:HOH549 4.6 11.7 1.0
MG B:MG395 4.7 33.5 1.0
O2' B:AP2393 4.8 19.6 1.0
C B:THR85 4.9 21.0 1.0
O A:GLY162 4.9 22.1 1.0
O B:MET68 5.0 22.8 1.0

Reference:

K.T.Wang, J.Wang, L.F.Li, X.D.Su. Crystal Structures of Catalytic Intermediates of Human Selenophosphate Synthetase 1. J.Mol.Biol. V. 390 747 2009.
ISSN: ISSN 0022-2836
PubMed: 19477186
DOI: 10.1016/J.JMB.2009.05.032
Page generated: Sun Dec 13 23:18:34 2020

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