Atomistry » Potassium » PDB 8vx0-9gef » 9cen
Atomistry »
  Potassium »
    PDB 8vx0-9gef »
      9cen »

Potassium in PDB 9cen: Structure of the Thiocysteine Lyase (Sh) Domain From Guangnanmycin A Biosynthetic Pathway

Protein crystallography data

The structure of Structure of the Thiocysteine Lyase (Sh) Domain From Guangnanmycin A Biosynthetic Pathway, PDB code: 9cen was solved by G.Li, C.Chang, B.Shen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 40.77 / 1.80
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 68.963, 89.555, 70.012, 90, 108.15, 90
R / Rfree (%) 14.7 / 18.1

Potassium Binding Sites:

The binding sites of Potassium atom in the Structure of the Thiocysteine Lyase (Sh) Domain From Guangnanmycin A Biosynthetic Pathway (pdb code 9cen). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 6 binding sites of Potassium where determined in the Structure of the Thiocysteine Lyase (Sh) Domain From Guangnanmycin A Biosynthetic Pathway, PDB code: 9cen:
Jump to Potassium binding site number: 1; 2; 3; 4; 5; 6;

Potassium binding site 1 out of 6 in 9cen

Go back to Potassium Binding Sites List in 9cen
Potassium binding site 1 out of 6 in the Structure of the Thiocysteine Lyase (Sh) Domain From Guangnanmycin A Biosynthetic Pathway


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 Thiocysteine Lyase (Sh) Domain From Guangnanmycin A Biosynthetic Pathway within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K501

b:33.8
occ:0.45
 O A:HOH885 2.6 35.6 1.0
OE1 A:GLN279 2.8 34.6 1.0
O A:LEU277 2.8 24.7 1.0
CD A:GLN279 3.6 28.0 1.0
C A:LEU277 3.7 26.3 1.0
CD A:PRO68 3.8 31.8 1.0
CG A:GLN279 3.8 24.2 1.0
CA A:LEU277 3.8 22.2 1.0
CD2 A:LEU277 4.1 25.8 1.0
CG A:PRO68 4.3 38.1 1.0
O A:LEU276 4.3 22.1 1.0
O A:HOH611 4.5 46.5 1.0
CD2 A:LEU67 4.5 25.3 1.0
CB A:LEU277 4.5 20.2 1.0
O A:HOH782 4.7 43.7 1.0
CB A:GLN279 4.7 20.1 1.0
N A:GLN279 4.8 17.3 1.0
NE2 A:GLN279 4.9 24.7 1.0
CG A:LEU277 4.9 20.7 1.0
N A:HIS278 5.0 20.4 1.0
N A:LEU277 5.0 18.0 1.0

Potassium binding site 2 out of 6 in 9cen

Go back to Potassium Binding Sites List in 9cen
Potassium binding site 2 out of 6 in the Structure of the Thiocysteine Lyase (Sh) Domain From Guangnanmycin A Biosynthetic Pathway


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 Thiocysteine Lyase (Sh) Domain From Guangnanmycin A Biosynthetic Pathway within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K502

b:87.5
occ:0.92
 O A:HOH881 2.7 36.4 1.0
O A:VAL26 2.9 19.9 1.0
O A:GLU27 2.9 22.8 0.4
O A:GLU27 3.0 22.3 0.6
O A:HOH708 3.3 27.8 1.0
C A:GLU27 3.6 21.9 0.4
C A:GLU27 3.6 22.4 0.6
CA A:GLU27 3.8 19.2 0.6
CA A:GLU27 3.8 19.7 0.4
C A:VAL26 3.9 19.6 1.0
N A:GLU27 4.3 19.6 0.6
N A:GLU27 4.3 19.4 0.4
O A:HOH718 4.5 26.6 1.0
N A:LEU28 4.7 17.7 1.0
O A:HOH753 4.8 31.9 1.0
O A:VAL24 4.9 19.5 1.0
O A:HOH727 5.0 43.4 1.0

Potassium binding site 3 out of 6 in 9cen

Go back to Potassium Binding Sites List in 9cen
Potassium binding site 3 out of 6 in the Structure of the Thiocysteine Lyase (Sh) Domain From Guangnanmycin A Biosynthetic Pathway


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 Thiocysteine Lyase (Sh) Domain From Guangnanmycin A Biosynthetic Pathway within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K503

b:20.0
occ:0.28
 OG1 A:THR47 2.6 29.6 1.0
OD1 A:ASP237 2.6 22.0 1.0
O A:GLN43 2.7 21.5 1.0
O A:HOH761 2.7 21.2 1.0
CG A:ASP237 3.3 25.2 1.0
CZ3 A:TRP35 3.4 13.8 1.0
C A:GLN43 3.5 18.0 1.0
OD2 A:ASP237 3.5 24.9 1.0
CA A:GLN43 3.7 16.7 1.0
CE3 A:TRP35 3.7 12.4 1.0
N A:THR47 3.7 14.8 1.0
CB A:GLN43 3.7 16.6 1.0
CB A:THR47 3.8 22.0 1.0
O A:HOH639 3.8 28.2 1.0
O A:HOH739 3.9 23.2 1.0
CG A:ARG46 4.1 21.9 1.0
CB A:ARG46 4.1 17.8 1.0
CA A:THR47 4.1 14.4 1.0
O A:GLY235 4.2 15.4 1.0
N A:ASP237 4.3 14.8 1.0
O A:HOH712 4.3 35.4 1.0
CB A:ASP237 4.5 19.7 1.0
C A:ARG46 4.5 16.4 1.0
CG A:GLN43 4.5 14.7 1.0
CA A:VAL236 4.5 14.5 1.0
C A:VAL236 4.6 15.7 1.0
CH2 A:TRP35 4.6 17.4 1.0
N A:ARG44 4.6 19.5 1.0
CA A:ASP237 4.8 17.2 1.0
NE2 A:GLN43 4.8 13.8 1.0
CA A:ARG46 4.8 18.6 1.0
C A:GLY235 4.8 16.4 1.0
CG2 A:THR47 4.9 26.5 1.0

Potassium binding site 4 out of 6 in 9cen

Go back to Potassium Binding Sites List in 9cen
Potassium binding site 4 out of 6 in the Structure of the Thiocysteine Lyase (Sh) Domain From Guangnanmycin A Biosynthetic Pathway


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of Structure of the Thiocysteine Lyase (Sh) Domain From Guangnanmycin A Biosynthetic Pathway within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K503

b:24.7
occ:0.31
 O B:HOH977 2.5 28.1 1.0
OG1 B:THR47 2.8 24.3 1.0
OD2 B:ASP237 2.8 20.4 1.0
O B:HOH957 2.9 38.4 1.0
O B:HOH758 3.0 15.6 1.0
CG2 B:THR47 3.1 31.7 1.0
CB B:THR47 3.5 21.2 1.0
CG B:ASP237 3.6 23.5 1.0
O B:HOH814 3.7 26.2 1.0
O B:HOH973 3.7 28.5 1.0
O A:HOH873 3.8 46.3 1.0
CB B:ASP237 4.0 13.5 1.0
O B:HOH661 4.1 21.3 1.0
O B:HOH904 4.3 29.8 1.0
O B:HOH647 4.3 24.8 1.0
O B:HOH828 4.4 18.2 1.0
OD1 B:ASP237 4.4 19.5 1.0
O B:HOH869 4.5 22.9 1.0
O A:HOH844 4.6 27.9 1.0
CA B:THR47 4.7 12.5 1.0
N B:ASP237 4.9 11.2 1.0

Potassium binding site 5 out of 6 in 9cen

Go back to Potassium Binding Sites List in 9cen
Potassium binding site 5 out of 6 in the Structure of the Thiocysteine Lyase (Sh) Domain From Guangnanmycin A Biosynthetic Pathway


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 5 of Structure of the Thiocysteine Lyase (Sh) Domain From Guangnanmycin A Biosynthetic Pathway within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K504

b:56.5
occ:0.60
 OD2 B:ASP37 2.6 30.4 1.0
OG1 B:THR32 2.7 14.2 1.0
O B:HOH879 2.9 43.0 1.0
CB B:THR32 3.3 10.6 1.0
O B:HOH912 3.5 47.9 1.0
CG2 B:THR32 3.7 11.7 1.0
CG B:ASP37 3.8 23.9 1.0
CB B:SER34 3.9 14.3 1.0
O B:HOH621 4.0 30.5 1.0
O B:HOH949 4.0 50.6 1.0
CB B:ASP37 4.4 12.3 1.0
OG B:SER34 4.7 16.5 1.0
CA B:THR32 4.7 10.3 1.0
OD1 B:ASP37 4.7 25.0 1.0
NH2 B:ARG371 4.8 22.8 1.0

Potassium binding site 6 out of 6 in 9cen

Go back to Potassium Binding Sites List in 9cen
Potassium binding site 6 out of 6 in the Structure of the Thiocysteine Lyase (Sh) Domain From Guangnanmycin A Biosynthetic Pathway


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 6 of Structure of the Thiocysteine Lyase (Sh) Domain From Guangnanmycin A Biosynthetic Pathway within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K505

b:72.8
occ:0.69
 O B:HOH878 2.8 40.4 1.0
OP3 B:LLP232 3.1 24.3 1.0
O B:HOH622 3.2 36.5 1.0
OP1 B:LLP232 3.3 17.2 1.0
P B:LLP232 3.4 20.8 1.0
O B:HOH623 3.5 34.8 1.0
OP2 B:LLP232 3.5 19.7 1.0
CB B:SER80 3.6 17.8 1.0
O B:HOH621 3.7 30.5 1.0
CB B:ALA36 3.7 16.0 1.0
NE B:ARG82 4.4 29.5 1.0
O A:HOH713 4.4 36.7 1.0
NH2 B:ARG82 4.5 27.8 1.0
OG B:SER80 4.5 13.2 1.0
CA B:SER80 4.7 16.5 1.0
CZ B:ARG82 4.7 32.6 1.0
OP4 B:LLP232 4.9 22.2 1.0

Reference:

A.D.Steele, S.Meng, G.Li, E.Kalkreuter, C.Chang, B.Shen. Structural Insights Into the Mechanism of A Polyketide Synthase Thiocysteine Lyase Domain To Be Published.
Page generated: Thu Oct 31 21:36:28 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy