Atomistry » Molybdenum » PDB 2ca3-3fah » 3bdj
Atomistry »
  Molybdenum »
    PDB 2ca3-3fah »
      3bdj »

Molybdenum in PDB 3bdj: Crystal Structure of Bovine Milk Xanthine Dehydrogenase with A Covalently Bound Oxipurinol Inhibitor

Enzymatic activity of Crystal Structure of Bovine Milk Xanthine Dehydrogenase with A Covalently Bound Oxipurinol Inhibitor

All present enzymatic activity of Crystal Structure of Bovine Milk Xanthine Dehydrogenase with A Covalently Bound Oxipurinol Inhibitor:
1.17.1.4; 1.17.3.2;

Protein crystallography data

The structure of Crystal Structure of Bovine Milk Xanthine Dehydrogenase with A Covalently Bound Oxipurinol Inhibitor, PDB code: 3bdj was solved by B.T.Eger, K.Okamoto, T.Nishino, E.F.Pai, T.Nishino, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.96 / 2.00
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 166.517, 124.074, 148.797, 90.00, 91.01, 90.00
R / Rfree (%) 19.1 / 22.4

Other elements in 3bdj:

The structure of Crystal Structure of Bovine Milk Xanthine Dehydrogenase with A Covalently Bound Oxipurinol Inhibitor also contains other interesting chemical elements:

Iron (Fe) 8 atoms
Calcium (Ca) 2 atoms

Molybdenum Binding Sites:

The binding sites of Molybdenum atom in the Crystal Structure of Bovine Milk Xanthine Dehydrogenase with A Covalently Bound Oxipurinol Inhibitor (pdb code 3bdj). This binding sites where shown within 5.0 Angstroms radius around Molybdenum atom.
In total 2 binding sites of Molybdenum where determined in the Crystal Structure of Bovine Milk Xanthine Dehydrogenase with A Covalently Bound Oxipurinol Inhibitor, PDB code: 3bdj:
Jump to Molybdenum binding site number: 1; 2;

Molybdenum binding site 1 out of 2 in 3bdj

Go back to Molybdenum Binding Sites List in 3bdj
Molybdenum binding site 1 out of 2 in the Crystal Structure of Bovine Milk Xanthine Dehydrogenase with A Covalently Bound Oxipurinol Inhibitor


Mono view


Stereo pair view

A full contact list of Molybdenum with other atoms in the Mo binding site number 1 of Crystal Structure of Bovine Milk Xanthine Dehydrogenase with A Covalently Bound Oxipurinol Inhibitor within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mo3004

b:15.6
occ:1.00
MO1 A:MOW3004 0.0 15.6 1.0
O1 A:MOW3004 1.7 14.4 1.0
N8 A:1415101 2.3 13.8 1.0
S2' A:MTE3003 2.4 14.5 1.0
S1 A:MOW3004 2.4 15.6 1.0
S1' A:MTE3003 2.4 12.1 1.0
C7 A:1415101 3.2 15.1 1.0
N9 A:1415101 3.2 15.6 1.0
C2' A:MTE3003 3.4 12.1 1.0
C1' A:MTE3003 3.4 12.9 1.0
OE2 A:GLU1261 3.8 15.7 1.0
CA A:GLY799 4.0 11.8 1.0
CD A:GLU1261 4.2 15.8 1.0
N A:ALA1079 4.2 14.4 1.0
CB A:ALA1078 4.2 15.9 1.0
N A:GLY799 4.2 10.7 1.0
C5 A:1415101 4.4 14.6 1.0
C4 A:1415101 4.4 15.4 1.0
CA A:ALA1078 4.5 14.2 1.0
C A:PHE798 4.6 12.3 1.0
CG A:GLU1261 4.7 13.7 1.0
CA A:ARG912 4.7 12.7 1.0
NE2 A:GLN767 4.7 13.3 1.0
N A:ARG912 4.7 12.5 1.0
C3' A:MTE3003 4.7 13.9 1.0
OE1 A:GLU1261 4.8 14.4 1.0
O A:PHE798 4.8 12.2 1.0
C6 A:MTE3003 4.8 11.8 1.0
C A:ALA1078 4.9 15.2 1.0
OE2 A:GLU802 4.9 15.7 1.0

Molybdenum binding site 2 out of 2 in 3bdj

Go back to Molybdenum Binding Sites List in 3bdj
Molybdenum binding site 2 out of 2 in the Crystal Structure of Bovine Milk Xanthine Dehydrogenase with A Covalently Bound Oxipurinol Inhibitor


Mono view


Stereo pair view

A full contact list of Molybdenum with other atoms in the Mo binding site number 2 of Crystal Structure of Bovine Milk Xanthine Dehydrogenase with A Covalently Bound Oxipurinol Inhibitor within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mo4004

b:16.3
occ:1.00
MO1 B:MOW4004 0.0 16.3 1.0
O1 B:MOW4004 1.7 14.0 1.0
N8 B:1415102 2.3 13.9 1.0
S2' B:MTE4003 2.4 14.2 1.0
S1 B:MOW4004 2.4 14.2 1.0
S1' B:MTE4003 2.4 10.8 1.0
C7 B:1415102 3.2 15.5 1.0
N9 B:1415102 3.2 13.9 1.0
C2' B:MTE4003 3.4 12.8 1.0
C1' B:MTE4003 3.4 13.3 1.0
OE2 B:GLU1261 3.6 15.1 1.0
CB B:ALA1078 4.0 14.2 1.0
CA B:GLY799 4.1 11.2 1.0
CD B:GLU1261 4.1 12.7 1.0
N B:ALA1079 4.2 13.6 1.0
N B:GLY799 4.2 13.7 1.0
C5 B:1415102 4.4 14.9 1.0
C4 B:1415102 4.4 15.2 1.0
CA B:ALA1078 4.4 14.0 1.0
C B:PHE798 4.6 14.8 1.0
CG B:GLU1261 4.6 11.5 1.0
OE1 B:GLU1261 4.6 13.5 1.0
NE2 B:GLN767 4.6 12.5 1.0
CA B:ARG912 4.7 14.2 1.0
O B:PHE798 4.7 14.0 1.0
N B:ARG912 4.8 14.7 1.0
C3' B:MTE4003 4.8 14.7 1.0
OE2 B:GLU802 4.8 11.3 1.0
C6 B:MTE4003 4.9 11.6 1.0
C B:ALA1078 4.9 14.0 1.0

Reference:

K.Okamoto, B.T.Eger, T.Nishino, E.F.Pai, T.Nishino. Mechanism of Inhibition of Xanthine Oxidoreductase By Allopurinol: Crystal Structure of Reduced Bovine Milk Xanthine Oxidoreductase Bound with Oxipurinol. Nucleosides Nucleotides V. 27 888 2008NUCLEIC Acids.
ISSN: ISSN 1525-7770
PubMed: 18600558
DOI: 10.1080/15257770802146577
Page generated: Sun Oct 6 15:51:26 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