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Praseodymium in PDB 6zcv: Crystal Structure of Lanthanide-Dependent Alcohol Dehydrogenase Pedh From Pseudomonas Putida KT2440

Enzymatic activity of Crystal Structure of Lanthanide-Dependent Alcohol Dehydrogenase Pedh From Pseudomonas Putida KT2440

All present enzymatic activity of Crystal Structure of Lanthanide-Dependent Alcohol Dehydrogenase Pedh From Pseudomonas Putida KT2440:
1.1.2.8;

Protein crystallography data

The structure of Crystal Structure of Lanthanide-Dependent Alcohol Dehydrogenase Pedh From Pseudomonas Putida KT2440, PDB code: 6zcv was solved by G.Bange, A.Lepak, E.M.Elsayed, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 47.19 / 1.70
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 105.530, 105.530, 186.880, 90.00, 90.00, 90.00
R / Rfree (%) 14.2 / 16

Other elements in 6zcv:

The structure of Crystal Structure of Lanthanide-Dependent Alcohol Dehydrogenase Pedh From Pseudomonas Putida KT2440 also contains other interesting chemical elements:

Calcium (Ca) 1 atom

Praseodymium Binding Sites:

The binding sites of Praseodymium atom in the Crystal Structure of Lanthanide-Dependent Alcohol Dehydrogenase Pedh From Pseudomonas Putida KT2440 (pdb code 6zcv). This binding sites where shown within 5.0 Angstroms radius around Praseodymium atom.
In total only one binding site of Praseodymium was determined in the Crystal Structure of Lanthanide-Dependent Alcohol Dehydrogenase Pedh From Pseudomonas Putida KT2440, PDB code: 6zcv:

Praseodymium binding site 1 out of 1 in 6zcv

Go back to Praseodymium Binding Sites List in 6zcv
Praseodymium binding site 1 out of 1 in the Crystal Structure of Lanthanide-Dependent Alcohol Dehydrogenase Pedh From Pseudomonas Putida KT2440


Mono view


Stereo pair view

A full contact list of Praseodymium with other atoms in the Pr binding site number 1 of Crystal Structure of Lanthanide-Dependent Alcohol Dehydrogenase Pedh From Pseudomonas Putida KT2440 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pr703

b:17.0
occ:0.97
 O5 A:PQQ702 2.5 21.4 1.0
OD1 A:ASN281 2.5 19.1 1.0
O7B A:PQQ702 2.6 18.1 1.0
N6 A:PQQ702 2.6 14.4 1.0
OE1 A:GLU199 2.6 19.1 1.0
OD1 A:ASP323 2.6 22.7 0.9
OE2 A:GLU199 2.6 16.8 0.8
OD2 A:ASP325 2.7 20.5 1.0
OD1 A:ASP325 2.7 19.9 0.8
CD A:GLU199 2.9 21.1 1.0
CG A:ASP325 3.1 18.6 1.0
OD2 A:ASP323 3.1 30.0 1.0
CG A:ASP323 3.3 21.6 1.0
C5 A:PQQ702 3.3 20.3 1.0
C7X A:PQQ702 3.4 14.9 1.0
CG A:ASN281 3.4 19.9 1.0
C6A A:PQQ702 3.5 16.2 1.0
C7 A:PQQ702 3.5 14.8 1.0
HH22 A:ARG350 3.8 23.7 1.0
H A:ASN281 3.9 19.4 1.0
HE1 A:TRP263 3.9 18.9 1.0
HB3 A:ASN281 4.1 20.7 1.0
HE1 A:TRP285 4.1 23.8 1.0
HD21 A:ASN281 4.1 25.2 1.0
HO3 A:GOL704 4.1 35.1 0.3
ND2 A:ASN281 4.2 21.0 1.0
O1 A:GOL704 4.3 42.6 1.0
HO1 A:GOL704 4.3 51.0 0.9
CB A:ASN281 4.4 17.3 1.0
HH12 A:ARG350 4.4 22.0 0.0
NE1 A:TRP263 4.5 15.8 1.0
HG A:CYS131 4.5 28.4 0.0
CG A:GLU199 4.5 18.8 1.0
NH2 A:ARG350 4.6 19.8 1.0
CB A:ASP325 4.6 14.6 0.9
O A:HOH1046 4.6 14.4 1.0
O7A A:PQQ702 4.6 15.4 1.0
H A:GLU199 4.7 19.7 0.7
N A:ASN281 4.7 16.2 1.0
C4 A:PQQ702 4.7 17.3 1.0
HZ2 A:TRP285 4.7 33.4 1.0
HZ2 A:TRP263 4.7 20.5 1.0
HG2 A:GLU199 4.8 22.4 1.0
CB A:ASP323 4.8 19.6 1.0
HA3 A:GLY198 4.8 20.9 1.0
C9A A:PQQ702 4.8 14.6 1.0
HG3 A:GLU199 4.9 22.4 1.0
C8 A:PQQ702 4.9 14.4 0.9
H A:ASP325 4.9 20.0 1.0
O3 A:GOL704 4.9 29.3 1.0
NE1 A:TRP285 4.9 19.9 1.0
HB2 A:ASP325 4.9 17.4 1.0
O A:HOH1182 5.0 18.9 1.0
HB3 A:ASP325 5.0 17.4 1.0
HD22 A:ASN281 5.0 25.2 1.0

Reference:

M.Wehrmann, E.M.Elsayed, S.Koebbing, L.Bendz, A.Lepak, J.Schwabe, N.Wierckx, G.Bange, J.Klebensberger. Engineered Pqq-Dependent Alcohol Dehydrogenase For the Oxidation of 5-(Hydroxymethyl)Furoic Acid Acs Catalysis 2020.
ISSN: ESSN 2155-5435
DOI: 10.1021/ACSCATAL.0C01789
Page generated: Thu Oct 10 10:32:22 2024

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