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Potassium in PDB 2o1s: 1-Deoxy-D-Xylulose 5-Phosphate Synthase (Dxs) From Escherichia Coli

Enzymatic activity of 1-Deoxy-D-Xylulose 5-Phosphate Synthase (Dxs) From Escherichia Coli

All present enzymatic activity of 1-Deoxy-D-Xylulose 5-Phosphate Synthase (Dxs) From Escherichia Coli:
2.2.1.7;

Protein crystallography data

The structure of 1-Deoxy-D-Xylulose 5-Phosphate Synthase (Dxs) From Escherichia Coli, PDB code: 2o1s was solved by S.Xiang, G.Usunow, G.Lange, M.Busch, L.Tong, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.00 / 2.40
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 86.787, 171.154, 94.799, 90.00, 107.25, 90.00
R / Rfree (%) 19.1 / 23.4

Other elements in 2o1s:

The structure of 1-Deoxy-D-Xylulose 5-Phosphate Synthase (Dxs) From Escherichia Coli also contains other interesting chemical elements:

Magnesium (Mg) 4 atoms

Potassium Binding Sites:

The binding sites of Potassium atom in the 1-Deoxy-D-Xylulose 5-Phosphate Synthase (Dxs) From Escherichia Coli (pdb code 2o1s). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 4 binding sites of Potassium where determined in the 1-Deoxy-D-Xylulose 5-Phosphate Synthase (Dxs) From Escherichia Coli, PDB code: 2o1s:
Jump to Potassium binding site number: 1; 2; 3; 4;

Potassium binding site 1 out of 4 in 2o1s

Go back to Potassium Binding Sites List in 2o1s
Potassium binding site 1 out of 4 in the 1-Deoxy-D-Xylulose 5-Phosphate Synthase (Dxs) From Escherichia Coli


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of 1-Deoxy-D-Xylulose 5-Phosphate Synthase (Dxs) From Escherichia Coli within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K2001

b:23.4
occ:1.00
 O A:PRO413 3.0 9.5 1.0
O A:GLY464 3.0 13.7 1.0
O A:TYR467 3.0 17.0 1.0
O A:TYR465 3.3 12.1 1.0
O A:HOH3146 3.3 19.2 1.0
O A:HOH3061 3.4 19.2 1.0
C A:TYR465 3.7 13.1 1.0
C A:PRO413 3.8 11.1 1.0
CB A:PRO413 3.8 12.6 1.0
C A:TYR467 4.0 16.2 1.0
CA A:TYR465 4.0 12.0 1.0
C A:GLY464 4.1 14.0 1.0
OD1 A:ASN468 4.1 26.4 1.0
N A:TYR467 4.2 14.3 1.0
CA A:PRO413 4.3 11.3 1.0
NZ A:LYS386 4.3 14.9 1.0
N A:HIS466 4.5 13.6 1.0
N A:TYR465 4.5 12.7 1.0
CA A:TYR467 4.6 14.8 1.0
N A:VAL414 4.7 11.7 1.0
N A:LEU415 4.7 10.0 1.0
CB A:LEU415 4.7 9.0 1.0
CG A:PRO413 4.8 11.3 1.0
C A:VAL414 4.8 10.3 1.0
C A:HIS466 4.8 13.9 1.0
N A:ASN468 4.8 17.9 1.0
OG A:SER472 4.9 6.5 1.0
CA A:ASN468 4.9 18.2 1.0
CA A:HIS466 5.0 12.4 1.0
CB A:TYR467 5.0 15.3 1.0

Potassium binding site 2 out of 4 in 2o1s

Go back to Potassium Binding Sites List in 2o1s
Potassium binding site 2 out of 4 in the 1-Deoxy-D-Xylulose 5-Phosphate Synthase (Dxs) From Escherichia Coli


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of 1-Deoxy-D-Xylulose 5-Phosphate Synthase (Dxs) From Escherichia Coli within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K2002

b:14.2
occ:1.00
 O B:GLY464 2.9 5.3 1.0
O B:TYR467 3.0 11.0 1.0
O B:TYR465 3.0 10.6 1.0
O B:PRO413 3.1 9.3 1.0
O B:HOH4064 3.3 17.6 1.0
O B:HOH4043 3.3 12.2 1.0
C B:TYR465 3.5 10.1 1.0
CB B:PRO413 3.8 2.9 1.0
CA B:TYR465 3.8 8.7 1.0
C B:TYR467 3.9 10.1 1.0
C B:PRO413 4.0 7.8 1.0
C B:GLY464 4.0 6.4 1.0
N B:TYR467 4.0 8.9 1.0
OD1 B:ASN468 4.0 19.2 1.0
N B:HIS466 4.3 9.9 1.0
CE B:LYS386 4.3 16.0 1.0
CA B:PRO413 4.4 5.3 1.0
N B:TYR465 4.4 7.7 1.0
CA B:TYR467 4.5 9.2 1.0
C B:HIS466 4.7 9.5 1.0
N B:ASN468 4.7 11.1 1.0
CA B:HIS466 4.8 9.9 1.0
CG B:PRO413 4.8 2.1 1.0
OG B:SER472 4.8 7.1 1.0
CA B:ASN468 4.9 13.1 1.0
CB B:LEU415 4.9 6.3 1.0
CB B:TYR467 4.9 9.8 1.0
N B:LEU415 5.0 5.1 1.0

Potassium binding site 3 out of 4 in 2o1s

Go back to Potassium Binding Sites List in 2o1s
Potassium binding site 3 out of 4 in the 1-Deoxy-D-Xylulose 5-Phosphate Synthase (Dxs) From Escherichia Coli


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of 1-Deoxy-D-Xylulose 5-Phosphate Synthase (Dxs) From Escherichia Coli within 5.0Å range:
probe atom residue distance (Å) B Occ
C:K2003

b:24.1
occ:1.00
 O C:TYR467 3.0 15.3 1.0
O C:GLY464 3.0 11.8 1.0
O C:PRO413 3.0 18.1 1.0
O C:TYR465 3.1 12.4 1.0
O C:HOH3119 3.2 26.2 1.0
O C:HOH3102 3.4 14.1 1.0
C C:TYR465 3.6 11.2 1.0
CB C:PRO413 3.8 16.4 1.0
C C:PRO413 3.9 16.5 1.0
C C:TYR467 4.0 16.8 1.0
CA C:TYR465 4.0 10.1 1.0
C C:GLY464 4.1 12.4 1.0
N C:TYR467 4.2 14.4 1.0
NZ C:LYS386 4.2 18.7 1.0
CA C:PRO413 4.3 17.0 1.0
OD1 C:ASN468 4.4 29.9 1.0
N C:HIS466 4.5 11.4 1.0
N C:TYR465 4.5 11.5 1.0
CA C:TYR467 4.6 15.1 1.0
CG C:PRO413 4.8 16.5 1.0
OG C:SER472 4.8 11.3 1.0
C C:HIS466 4.9 12.8 1.0
N C:VAL414 4.9 14.7 1.0
N C:LEU415 4.9 9.0 1.0
N C:ASN468 4.9 17.6 1.0
CB C:LEU415 4.9 6.7 1.0
C C:VAL414 4.9 10.3 1.0
CA C:HIS466 4.9 11.3 1.0
CB C:TYR467 5.0 14.7 1.0
CA C:ASN468 5.0 21.1 1.0

Potassium binding site 4 out of 4 in 2o1s

Go back to Potassium Binding Sites List in 2o1s
Potassium binding site 4 out of 4 in the 1-Deoxy-D-Xylulose 5-Phosphate Synthase (Dxs) From Escherichia Coli


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of 1-Deoxy-D-Xylulose 5-Phosphate Synthase (Dxs) From Escherichia Coli within 5.0Å range:
probe atom residue distance (Å) B Occ
D:K2004

b:34.6
occ:1.00
 O D:PRO413 3.0 13.9 1.0
O D:GLY464 3.1 7.0 1.0
O D:TYR467 3.1 14.6 1.0
O D:TYR465 3.2 10.4 1.0
O D:HOH4020 3.3 7.3 1.0
O D:HOH4106 3.5 30.3 1.0
C D:TYR465 3.6 10.5 1.0
CB D:PRO413 3.7 12.0 1.0
C D:PRO413 3.9 13.6 1.0
NZ D:LYS386 3.9 9.2 1.0
CA D:TYR465 3.9 8.1 1.0
ND2 D:ASN468 3.9 15.8 1.0
C D:TYR467 4.0 13.5 1.0
C D:GLY464 4.1 8.5 1.0
N D:TYR467 4.1 12.7 1.0
CA D:PRO413 4.2 13.3 1.0
N D:HIS466 4.4 10.4 1.0
N D:TYR465 4.5 7.5 1.0
CA D:TYR467 4.6 13.5 1.0
C D:HIS466 4.8 11.7 1.0
N D:ASN468 4.8 14.4 1.0
CA D:HIS466 4.9 11.5 1.0
CB D:LEU415 4.9 6.0 1.0
CA D:ASN468 4.9 15.0 1.0
N D:VAL414 4.9 12.8 1.0
CE D:LYS386 4.9 8.0 1.0
N D:LEU415 4.9 8.0 1.0
C D:VAL414 4.9 9.4 1.0
OG D:SER472 5.0 4.7 1.0
CG D:ASN468 5.0 17.6 1.0

Reference:

S.Xiang, G.Usunow, G.Lange, M.Busch, L.Tong. Crystal Structure of 1-Deoxy-D-Xylulose 5-Phosphate Synthase, A Crucial Enzyme For Isoprenoids Biosynthesis. J.Biol.Chem. V. 282 2676 2007.
ISSN: ISSN 0021-9258
PubMed: 17135236
DOI: 10.1074/JBC.M610235200
Page generated: Mon Aug 12 06:48:16 2024

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