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 9IRQ
Zn in 9IYX
Zn in 9J8P
Zn in 9IUU
Zn in 9GBF
Zn in 9G2V
Zn in 9G2L
Zn in 9G2X
Zn in 9G2Z
Zn in 9G2K
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy