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Potassium in PDB 8crd: Aspergillus Niger Ferulic Acid Decarboxylase (Fdc) T40C-S315C (DB1) Variant in Complex with Prenylated Flavin Hydroxylated at the C1 Prime Position

Enzymatic activity of Aspergillus Niger Ferulic Acid Decarboxylase (Fdc) T40C-S315C (DB1) Variant in Complex with Prenylated Flavin Hydroxylated at the C1 Prime Position

All present enzymatic activity of Aspergillus Niger Ferulic Acid Decarboxylase (Fdc) T40C-S315C (DB1) Variant in Complex with Prenylated Flavin Hydroxylated at the C1 Prime Position:
4.1.1.102;

Protein crystallography data

The structure of Aspergillus Niger Ferulic Acid Decarboxylase (Fdc) T40C-S315C (DB1) Variant in Complex with Prenylated Flavin Hydroxylated at the C1 Prime Position, PDB code: 8crd was solved by G.W.Roberts, D.Leys, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 53.29 / 1.35
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 95.78, 64.03, 87.59, 90, 90, 90
R / Rfree (%) 15.2 / 17.6

Other elements in 8crd:

The structure of Aspergillus Niger Ferulic Acid Decarboxylase (Fdc) T40C-S315C (DB1) Variant in Complex with Prenylated Flavin Hydroxylated at the C1 Prime Position also contains other interesting chemical elements:

Manganese (Mn) 1 atom

Potassium Binding Sites:

The binding sites of Potassium atom in the Aspergillus Niger Ferulic Acid Decarboxylase (Fdc) T40C-S315C (DB1) Variant in Complex with Prenylated Flavin Hydroxylated at the C1 Prime Position (pdb code 8crd). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 2 binding sites of Potassium where determined in the Aspergillus Niger Ferulic Acid Decarboxylase (Fdc) T40C-S315C (DB1) Variant in Complex with Prenylated Flavin Hydroxylated at the C1 Prime Position, PDB code: 8crd:
Jump to Potassium binding site number: 1; 2;

Potassium binding site 1 out of 2 in 8crd

Go back to Potassium Binding Sites List in 8crd
Potassium binding site 1 out of 2 in the Aspergillus Niger Ferulic Acid Decarboxylase (Fdc) T40C-S315C (DB1) Variant in Complex with Prenylated Flavin Hydroxylated at the C1 Prime Position


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Aspergillus Niger Ferulic Acid Decarboxylase (Fdc) T40C-S315C (DB1) Variant in Complex with Prenylated Flavin Hydroxylated at the C1 Prime Position within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K603

b:14.8
occ:1.00
 O A:MET225 2.8 15.2 1.0
OE2 A:GLU233 2.8 14.1 1.0
O A:ALA222 2.8 15.0 1.0
O8 A:BYN601 2.8 14.7 1.0
O7 A:BYN601 3.0 14.7 1.0
O A:TRP169 3.1 14.4 1.0
O A:SER223 3.2 15.8 1.0
O A:HOH754 3.3 14.6 1.0
P1 A:BYN601 3.4 14.7 1.0
C A:SER223 3.5 14.8 1.0
O9 A:BYN601 3.6 14.8 1.0
MN A:MN602 3.6 14.8 1.0
CD A:GLU233 3.7 14.0 1.0
CA A:SER223 3.7 15.1 1.0
CG A:GLU233 3.8 14.8 1.0
C A:ALA222 3.8 14.4 1.0
C A:MET225 3.9 14.6 1.0
N A:MET225 4.1 14.4 1.0
N A:SER223 4.2 13.9 1.0
C22 A:BYN601 4.2 14.8 1.0
C A:TRP169 4.3 14.3 1.0
C21 A:BYN601 4.3 14.5 1.0
O6 A:BYN601 4.3 15.6 1.0
N A:SER224 4.3 14.8 0.5
N A:SER224 4.3 13.9 0.5
CB A:SER170 4.4 13.8 1.0
CA A:SER170 4.5 14.8 1.0
CA A:MET225 4.6 14.8 1.0
OE1 A:GLU233 4.7 14.9 1.0
C A:SER224 4.8 13.8 0.5
ND2 A:ASN168 4.8 15.1 1.0
O10 A:BYN601 4.9 15.4 1.0
C A:SER224 4.9 14.4 0.5
CG1 A:ILE227 4.9 15.6 1.0
N A:ILE227 4.9 14.6 1.0
N A:SER170 4.9 14.3 1.0
N A:PRO226 4.9 14.4 1.0
CA A:SER224 5.0 12.8 0.5
CB A:SER223 5.0 15.4 1.0
CA A:SER224 5.0 14.4 0.5

Potassium binding site 2 out of 2 in 8crd

Go back to Potassium Binding Sites List in 8crd
Potassium binding site 2 out of 2 in the Aspergillus Niger Ferulic Acid Decarboxylase (Fdc) T40C-S315C (DB1) Variant in Complex with Prenylated Flavin Hydroxylated at the C1 Prime Position


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Aspergillus Niger Ferulic Acid Decarboxylase (Fdc) T40C-S315C (DB1) Variant in Complex with Prenylated Flavin Hydroxylated at the C1 Prime Position within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K604

b:15.5
occ:1.00
 O A:ARG421 2.6 16.7 1.0
O A:LEU461 2.7 16.6 1.0
O A:ASP459 2.7 15.1 1.0
O A:HOH985 2.7 20.2 1.0
O A:HOH1109 2.8 17.0 1.0
OD2 A:ASP427 2.8 14.8 1.0
CG A:ASP427 3.4 15.4 1.0
O A:HOH907 3.5 20.3 1.0
C A:LEU461 3.7 13.8 1.0
C A:ASP459 3.7 15.0 1.0
C A:ARG421 3.8 14.1 1.0
CB A:ASP427 3.9 15.0 1.0
CA A:CYS422 4.1 14.5 1.0
N A:LEU461 4.2 15.8 1.0
OD1 A:ASP427 4.2 15.3 1.0
CA A:ALA460 4.3 14.9 1.0
O A:HOH795 4.3 15.0 1.0
C A:ALA460 4.3 15.0 1.0
N A:CYS422 4.4 14.2 1.0
N A:ALA460 4.4 14.1 1.0
CG A:ASP459 4.5 17.6 1.0
CB A:ASP459 4.5 15.3 1.0
N A:MET462 4.6 15.2 1.0
CA A:LEU461 4.6 13.9 1.0
CA A:MET462 4.6 15.8 1.0
N A:ARG423 4.7 14.1 1.0
CA A:ASP459 4.8 14.8 1.0
OD1 A:ASP459 4.8 15.8 1.0
OD2 A:ASP459 4.8 19.9 1.0
CA A:ARG421 4.9 13.7 1.0
CB A:CYS422 5.0 15.0 1.0

Reference:

G.W.Roberts, D.Leys. Aspergillus Niger Ferulic Acid Decarboxylase (Fdc) T40C-S315C (DB1) Variant in Complex with Prenylated Flavin Hydroxylated at the C1 Prime Position To Be Published.
Page generated: Mon Aug 12 22:57:13 2024

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