Molybdenum in PDB 3zx0: NTPDASE1 in Complex with Heptamolybdate

All present enzymatic activity of NTPDASE1 in Complex with Heptamolybdate:
3.6.1.5;

The structure of NTPDASE1 in Complex with Heptamolybdate, PDB code: 3zx0 was solved by M.Zebisch, P.Schaefer, N.Straeter, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	145.73 / 2.50
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	163.807, 80.267, 164.921, 90.00, 117.92, 90.00
R / Rfree (%)	21.3 / 25.7

The structure of NTPDASE1 in Complex with Heptamolybdate also contains other interesting chemical elements:

Chlorine	(Cl)	22 atoms
Sodium	(Na)	4 atoms

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 28;

Binding sites:

The binding sites of Molybdenum atom in the NTPDASE1 in Complex with Heptamolybdate (pdb code 3zx0). This binding sites where shown within 5.0 Angstroms radius around Molybdenum atom.
In total 28 binding sites of Molybdenum where determined in the NTPDASE1 in Complex with Heptamolybdate, PDB code: 3zx0:
Jump to Molybdenum binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Molybdenum binding site 1 out of 28 in the NTPDASE1 in Complex with Heptamolybdate


Mono view


Stereo pair view

A full contact list of Molybdenum with other atoms in the Mo binding site number 1 of NTPDASE1 in Complex with Heptamolybdate within 5.0Å range: probe atom residue distance (Å) B Occ A:Mo531 b:44.1 occ:0.50 MO1 A:MO7531 0.0 44.1 0.5 O4 A:MO7531 1.7 47.6 0.5 O1 A:MO7531 1.8 37.1 0.5 O3 A:MO7531 1.9 42.8 0.5 O17 A:MO7531 1.9 46.8 0.5 O5 A:MO7531 2.2 38.9 0.5 O2 A:MO7531 2.2 48.4 0.5 O7 A:MO7531 3.0 46.9 0.5 O18 A:MO7531 3.1 44.3 0.5 O19 A:MO7531 3.1 42.6 0.5 MO2 A:MO7531 3.2 55.9 0.5 MO7 A:MO7531 3.2 51.6 0.5 MO3 A:MO7531 3.3 52.0 0.5 MO5 A:MO7531 3.3 37.0 0.5 O20 A:MO7531 3.4 45.9 0.5 O9 A:MO7531 3.5 45.9 0.5 MO4 A:MO7531 3.5 50.3 0.5 MO6 A:MO7531 3.5 61.0 0.5 O12 A:MO7531 3.9 36.5 0.5 O8 A:MO7531 4.0 43.9 0.5 CG A:LYS406 4.0 61.5 1.0 O23 A:MO7531 4.4 40.7 0.5 O16 A:MO7531 4.4 31.2 0.5 O10 A:MO7531 4.4 49.7 0.5 O22 A:MO7531 4.5 43.0 0.5 O11 A:MO7531 4.5 43.9 0.5 O15 A:MO7531 4.5 30.6 0.5 CD A:LYS406 4.6 63.5 1.0 O13 A:MO7531 4.6 42.2 0.5 CE A:LYS406 4.6 68.6 1.0 O24 A:MO7531 4.7 42.8 0.5 O21 A:MO7531 4.8 39.8 0.5 O6 A:MO7531 4.8 50.1 0.5 CB A:LYS406 4.8 56.5 1.0 O14 A:MO7531 4.8 40.9 0.5

Molybdenum binding site 2 out of 28 in the NTPDASE1 in Complex with Heptamolybdate


Mono view


Stereo pair view

A full contact list of Molybdenum with other atoms in the Mo binding site number 2 of NTPDASE1 in Complex with Heptamolybdate within 5.0Å range: probe atom residue distance (Å) B Occ A:Mo531 b:55.9 occ:0.50 MO2 A:MO7531 0.0 55.9 0.5 O8 A:MO7531 1.7 43.9 0.5 O6 A:MO7531 1.7 50.1 0.5 O7 A:MO7531 1.9 46.9 0.5 O18 A:MO7531 2.0 44.3 0.5 O2 A:MO7531 2.1 48.4 0.5 O4 A:MO7531 2.4 47.6 0.5 O22 A:MO7531 2.7 43.0 0.5 O10 A:MO7531 3.1 49.7 0.5 MO6 A:MO7531 3.1 61.0 0.5 MO3 A:MO7531 3.2 52.0 0.5 MO1 A:MO7531 3.2 44.1 0.5 O17 A:MO7531 3.4 46.8 0.5 O3 A:MO7531 3.8 42.8 0.5 O20 A:MO7531 4.1 45.9 0.5 O9 A:MO7531 4.5 45.9 0.5 O11 A:MO7531 4.7 43.9 0.5 O5 A:MO7531 4.8 38.9 0.5 O21 A:MO7531 4.8 39.8 0.5 O1 A:MO7531 4.8 37.1 0.5

Molybdenum binding site 3 out of 28 in the NTPDASE1 in Complex with Heptamolybdate


Mono view


Stereo pair view

A full contact list of Molybdenum with other atoms in the Mo binding site number 3 of NTPDASE1 in Complex with Heptamolybdate within 5.0Å range: probe atom residue distance (Å) B Occ A:Mo531 b:52.0 occ:0.50 MO3 A:MO7531 0.0 52.0 0.5 O11 A:MO7531 1.7 43.9 0.5 O10 A:MO7531 1.8 49.7 0.5 O9 A:MO7531 2.0 45.9 0.5 O7 A:MO7531 2.0 46.9 0.5 O2 A:MO7531 2.1 48.4 0.5 O3 A:MO7531 2.2 42.8 0.5 MO2 A:MO7531 3.2 55.9 0.5 MO4 A:MO7531 3.2 50.3 0.5 MO1 A:MO7531 3.3 44.1 0.5 O20 A:MO7531 3.4 45.9 0.5 O5 A:MO7531 3.5 38.9 0.5 O6 A:MO7531 3.7 50.1 0.5 O22 A:MO7531 3.7 43.0 0.5 O14 A:MO7531 3.9 40.9 0.5 O4 A:MO7531 3.9 47.6 0.5 MO6 A:MO7531 4.0 61.0 0.5 O17 A:MO7531 4.1 46.8 0.5 O18 A:MO7531 4.3 44.3 0.5 O13 A:MO7531 4.5 42.2 0.5 O8 A:MO7531 4.6 43.9 0.5 MO7 A:MO7531 4.6 51.6 0.5 O1 A:MO7531 4.7 37.1 0.5 O12 A:MO7531 4.8 36.5 0.5

Molybdenum binding site 4 out of 28 in the NTPDASE1 in Complex with Heptamolybdate


Mono view


Stereo pair view

A full contact list of Molybdenum with other atoms in the Mo binding site number 4 of NTPDASE1 in Complex with Heptamolybdate within 5.0Å range: probe atom residue distance (Å) B Occ A:Mo531 b:50.3 occ:0.50 MO4 A:MO7531 0.0 50.3 0.5 O14 A:MO7531 1.7 40.9 0.5 O13 A:MO7531 1.8 42.2 0.5 O12 A:MO7531 2.0 36.5 0.5 O9 A:MO7531 2.0 45.9 0.5 O5 A:MO7531 2.0 38.9 0.5 O3 A:MO7531 2.2 42.8 0.5 MO5 A:MO7531 2.9 37.0 0.5 O16 A:MO7531 3.1 31.2 0.5 MO3 A:MO7531 3.2 52.0 0.5 O11 A:MO7531 3.3 43.9 0.5 MO1 A:MO7531 3.5 44.1 0.5 O19 A:MO7531 3.8 42.6 0.5 O20 A:MO7531 3.8 45.9 0.5 MO7 A:MO7531 3.9 51.6 0.5 O2 A:MO7531 3.9 48.4 0.5 O24 A:MO7531 3.9 42.8 0.5 O1 A:MO7531 3.9 37.1 0.5 O15 A:MO7531 4.3 30.6 0.5 O17 A:MO7531 4.5 46.8 0.5 O7 A:MO7531 4.5 46.9 0.5 O10 A:MO7531 4.8 49.7 0.5

Molybdenum binding site 5 out of 28 in the NTPDASE1 in Complex with Heptamolybdate


Mono view


Stereo pair view

A full contact list of Molybdenum with other atoms in the Mo binding site number 5 of NTPDASE1 in Complex with Heptamolybdate within 5.0Å range: probe atom residue distance (Å) B Occ A:Mo531 b:37.0 occ:0.50 MO5 A:MO7531 0.0 37.0 0.5 O15 A:MO7531 1.7 30.6 0.5 O16 A:MO7531 1.8 31.2 0.5 O12 A:MO7531 1.9 36.5 0.5 O19 A:MO7531 1.9 42.6 0.5 O5 A:MO7531 2.1 38.9 0.5 O1 A:MO7531 2.4 37.1 0.5 MO4 A:MO7531 2.9 50.3 0.5 O13 A:MO7531 3.2 42.2 0.5 MO1 A:MO7531 3.3 44.1 0.5 O3 A:MO7531 3.4 42.8 0.5 MO7 A:MO7531 3.5 51.6 0.5 O24 A:MO7531 3.8 42.8 0.5 CD A:LYS408 3.8 64.9 1.0 O17 A:MO7531 4.0 46.8 0.5 CB A:LYS408 4.0 56.4 1.0 O14 A:MO7531 4.1 40.9 0.5 CG A:LYS408 4.2 61.5 1.0 N A:LYS408 4.3 54.6 1.0 O9 A:MO7531 4.3 45.9 0.5 N A:GLU407 4.4 54.2 1.0 CB A:LYS406 4.7 56.5 1.0 O20 A:MO7531 4.7 45.9 0.5 CG A:LYS406 4.8 61.5 1.0 CA A:LYS408 4.8 53.6 1.0 O4 A:MO7531 4.8 47.6 0.5 O23 A:MO7531 4.8 40.7 0.5 O2 A:MO7531 4.9 48.4 0.5 C A:LYS406 4.9 53.2 1.0 CA A:LYS406 4.9 55.0 1.0 CE A:LYS408 4.9 67.8 1.0 NZ A:LYS408 5.0 73.4 1.0

Molybdenum binding site 6 out of 28 in the NTPDASE1 in Complex with Heptamolybdate


Mono view


Stereo pair view

A full contact list of Molybdenum with other atoms in the Mo binding site number 6 of NTPDASE1 in Complex with Heptamolybdate within 5.0Å range: probe atom residue distance (Å) B Occ A:Mo531 b:61.0 occ:0.50 MO6 A:MO7531 0.0 61.0 0.5 O21 A:MO7531 1.7 39.8 0.5 O22 A:MO7531 1.7 43.0 0.5 O20 A:MO7531 2.0 45.9 0.5 O18 A:MO7531 2.0 44.3 0.5 O2 A:MO7531 2.1 48.4 0.5 O17 A:MO7531 2.2 46.8 0.5 MO7 A:MO7531 3.1 51.6 0.5 MO2 A:MO7531 3.1 55.9 0.5 O23 A:MO7531 3.2 40.7 0.5 MO1 A:MO7531 3.5 44.1 0.5 O6 A:MO7531 3.7 50.1 0.5 O10 A:MO7531 3.7 49.7 0.5 O4 A:MO7531 3.9 47.6 0.5 O5 A:MO7531 3.9 38.9 0.5 MO3 A:MO7531 4.0 52.0 0.5 NZ A:LYS406 4.0 70.7 1.0 O9 A:MO7531 4.0 45.9 0.5 CE A:LYS406 4.2 68.6 1.0 O7 A:MO7531 4.2 46.9 0.5 O8 A:MO7531 4.5 43.9 0.5 O24 A:MO7531 4.5 42.8 0.5 O3 A:MO7531 4.5 42.8 0.5 O19 A:MO7531 4.6 42.6 0.5

Molybdenum binding site 7 out of 28 in the NTPDASE1 in Complex with Heptamolybdate


Mono view


Stereo pair view

A full contact list of Molybdenum with other atoms in the Mo binding site number 7 of NTPDASE1 in Complex with Heptamolybdate within 5.0Å range: probe atom residue distance (Å) B Occ A:Mo531 b:51.6 occ:0.50 MO7 A:MO7531 0.0 51.6 0.5 O23 A:MO7531 1.7 40.7 0.5 O24 A:MO7531 1.8 42.8 0.5 O20 A:MO7531 2.0 45.9 0.5 O19 A:MO7531 2.0 42.6 0.5 O5 A:MO7531 2.1 38.9 0.5 O17 A:MO7531 2.2 46.8 0.5 O21 A:MO7531 3.0 39.8 0.5 MO6 A:MO7531 3.1 61.0 0.5 NZ A:LYS408 3.1 73.4 1.0 O16 A:MO7531 3.1 31.2 0.5 MO1 A:MO7531 3.2 44.1 0.5 O2 A:MO7531 3.3 48.4 0.5 MO5 A:MO7531 3.5 37.0 0.5 O9 A:MO7531 3.5 45.9 0.5 O13 A:MO7531 3.5 42.2 0.5 MO4 A:MO7531 3.9 50.3 0.5 O1 A:MO7531 3.9 37.1 0.5 O3 A:MO7531 4.0 42.8 0.5 NZ A:LYS406 4.1 70.7 1.0 CD A:LYS408 4.1 64.9 1.0 CE A:LYS408 4.1 67.8 1.0 O18 A:MO7531 4.1 44.3 0.5 CD A:LYS406 4.2 63.5 1.0 CE A:LYS406 4.2 68.6 1.0 O22 A:MO7531 4.5 43.0 0.5 O4 A:MO7531 4.6 47.6 0.5 O12 A:MO7531 4.6 36.5 0.5 MO3 A:MO7531 4.6 52.0 0.5 CG A:LYS406 4.7 61.5 1.0

Molybdenum binding site 8 out of 28 in the NTPDASE1 in Complex with Heptamolybdate


Mono view


Stereo pair view

A full contact list of Molybdenum with other atoms in the Mo binding site number 8 of NTPDASE1 in Complex with Heptamolybdate within 5.0Å range: probe atom residue distance (Å) B Occ B:Mo531 b:77.4 occ:0.50 MO1 B:MO7531 0.0 77.4 0.5 O3 C:MO7531 1.6 67.0 0.5 MO1 C:MO7531 1.6 60.6 0.5 O1 B:MO7531 1.7 64.2 0.5 O4 B:MO7531 1.8 65.1 0.5 O17 B:MO7531 1.9 55.1 0.5 O3 B:MO7531 1.9 72.4 0.5 O4 C:MO7531 2.1 53.5 0.5 O2 B:MO7531 2.2 70.2 0.5 O5 B:MO7531 2.3 67.4 0.5 O1 C:MO7531 2.3 60.3 0.5 O7 C:MO7531 2.4 70.6 0.5 O21 B:MO7531 2.7 53.1 0.5 O2 C:MO7531 2.8 65.7 0.5 MO3 C:MO7531 2.9 84.0 0.5 MO2 B:MO7531 2.9 70.9 0.5 O7 B:MO7531 3.0 78.9 0.5 O19 B:MO7531 3.0 45.3 0.5 MO7 B:MO7531 3.2 52.5 0.5 MO2 C:MO7531 3.2 73.0 0.5 O18 C:MO7531 3.2 51.7 0.5 MO6 B:MO7531 3.3 72.5 0.5 O5 C:MO7531 3.3 68.7 0.5 MO3 B:MO7531 3.3 94.8 0.5 MO5 B:MO7531 3.4 64.2 0.5 O11 C:MO7531 3.4 61.4 0.5 O17 C:MO7531 3.5 61.8 0.5 CG B:LYS406 3.6 67.3 1.0 MO4 B:MO7531 3.6 88.3 0.5 O20 B:MO7531 3.7 55.5 0.5 MO4 C:MO7531 3.8 79.4 0.5 O9 C:MO7531 4.0 67.5 0.5 O13 B:MO7531 4.0 66.4 0.5 O9 B:MO7531 4.0 74.7 0.5 MO6 C:MO7531 4.0 64.4 0.5 O8 B:MO7531 4.0 56.7 0.5 O14 C:MO7531 4.1 66.9 0.5 O23 B:MO7531 4.1 43.8 0.5 O15 B:MO7531 4.2 53.3 0.5 O8 C:MO7531 4.2 52.7 0.5 O13 C:MO7531 4.2 63.7 0.5 O11 B:MO7531 4.3 70.7 0.5 O19 C:MO7531 4.3 52.8 0.5 O10 C:MO7531 4.3 72.0 0.5 MO5 C:MO7531 4.3 66.3 0.5 CD B:LYS406 4.3 67.7 1.0 O6 B:MO7531 4.4 57.0 0.5 O18 B:MO7531 4.4 57.6 0.5 CB B:LYS406 4.5 63.5 1.0 CE B:LYS406 4.5 69.5 1.0 CG C:LYS406 4.6 68.5 1.0 O21 C:MO7531 4.6 47.5 0.5 NZ B:LYS406 4.6 72.4 1.0 O22 B:MO7531 4.6 47.1 0.5 O14 B:MO7531 4.7 67.7 0.5 O24 B:MO7531 4.7 48.0 0.5 O6 C:MO7531 4.7 63.4 0.5 O15 C:MO7531 4.8 49.6 0.5 O16 B:MO7531 4.8 56.7 0.5 MO7 C:MO7531 4.9 73.4 0.5 O12 B:MO7531 4.9 83.0 0.5 O20 C:MO7531 4.9 58.8 0.5 O10 B:MO7531 5.0 74.6 0.5 CA B:LYS406 5.0 63.7 1.0

Molybdenum binding site 9 out of 28 in the NTPDASE1 in Complex with Heptamolybdate


Mono view


Stereo pair view

A full contact list of Molybdenum with other atoms in the Mo binding site number 9 of NTPDASE1 in Complex with Heptamolybdate within 5.0Å range: probe atom residue distance (Å) B Occ B:Mo531 b:70.9 occ:0.50 MO2 B:MO7531 0.0 70.9 0.5 O6 B:MO7531 1.7 57.0 0.5 O8 B:MO7531 1.7 56.7 0.5 O1 C:MO7531 1.8 60.3 0.5 O21 B:MO7531 1.9 53.1 0.5 O7 B:MO7531 2.0 78.9 0.5 O13 C:MO7531 2.0 63.7 0.5 O15 C:MO7531 2.1 49.6 0.5 O2 B:MO7531 2.1 70.2 0.5 MO5 C:MO7531 2.3 66.3 0.5 O3 C:MO7531 2.4 67.0 0.5 O1 B:MO7531 2.4 64.2 0.5 MO6 B:MO7531 2.7 72.5 0.5 MO1 B:MO7531 2.9 77.4 0.5 O5 C:MO7531 3.0 68.7 0.5 O22 B:MO7531 3.0 47.1 0.5 MO4 C:MO7531 3.0 79.4 0.5 O17 B:MO7531 3.0 55.1 0.5 MO1 C:MO7531 3.1 60.6 0.5 O14 C:MO7531 3.3 66.9 0.5 O19 C:MO7531 3.4 52.8 0.5 MO3 B:MO7531 3.5 94.8 0.5 O3 B:MO7531 3.8 72.4 0.5 O22 C:MO7531 4.0 62.2 0.5 N C:GLU407 4.0 65.8 1.0 O18 B:MO7531 4.1 57.6 0.5 O10 B:MO7531 4.2 74.6 0.5 O11 C:MO7531 4.3 61.4 0.5 O17 C:MO7531 4.3 61.8 0.5 O20 B:MO7531 4.4 55.5 0.5 O12 C:MO7531 4.4 61.5 0.5 O5 B:MO7531 4.4 67.4 0.5 O4 C:MO7531 4.5 53.5 0.5 CB C:GLU407 4.5 67.5 1.0 MO3 C:MO7531 4.5 84.0 0.5 O9 C:MO7531 4.5 67.5 0.5 CA C:LYS406 4.6 64.1 1.0 MO7 C:MO7531 4.6 73.4 0.5 CB C:LYS406 4.6 64.3 1.0 O4 B:MO7531 4.6 65.1 0.5 N C:LYS408 4.6 63.4 1.0 C C:LYS406 4.7 63.3 1.0 O9 B:MO7531 4.7 74.7 0.5 CA C:GLU407 4.7 64.7 1.0 O2 C:MO7531 4.7 65.7 0.5 CG C:LYS406 4.8 68.5 1.0 O11 B:MO7531 4.9 70.7 0.5 MO7 B:MO7531 4.9 52.5 0.5

Molybdenum binding site 10 out of 28 in the NTPDASE1 in Complex with Heptamolybdate


Mono view


Stereo pair view

A full contact list of Molybdenum with other atoms in the Mo binding site number 10 of NTPDASE1 in Complex with Heptamolybdate within 5.0Å range: probe atom residue distance (Å) B Occ B:Mo531 b:94.8 occ:0.50 MO3 B:MO7531 0.0 94.8 0.5 O5 C:MO7531 1.1 68.7 0.5 O11 B:MO7531 1.7 70.7 0.5 MO4 C:MO7531 1.7 79.4 0.5 O10 B:MO7531 1.7 74.6 0.5 O9 C:MO7531 1.9 67.5 0.5 O9 B:MO7531 1.9 74.7 0.5 O7 B:MO7531 2.0 78.9 0.5 O3 C:MO7531 2.1 67.0 0.5 O3 B:MO7531 2.2 72.4 0.5 O2 B:MO7531 2.2 70.2 0.5 O2 C:MO7531 2.5 65.7 0.5 MO1 C:MO7531 2.6 60.6 0.5 O12 C:MO7531 2.7 61.5 0.5 O20 C:MO7531 2.8 58.8 0.5 MO3 C:MO7531 2.9 84.0 0.5 MO7 C:MO7531 2.9 73.4 0.5 O13 C:MO7531 2.9 63.7 0.5 MO4 B:MO7531 3.0 88.3 0.5 MO5 C:MO7531 3.1 66.3 0.5 O1 C:MO7531 3.2 60.3 0.5 O17 C:MO7531 3.3 61.8 0.5 O14 C:MO7531 3.3 66.9 0.5 O14 B:MO7531 3.3 67.7 0.5 MO1 B:MO7531 3.3 77.4 0.5 MO6 C:MO7531 3.4 64.4 0.5 MO2 B:MO7531 3.5 70.9 0.5 O19 C:MO7531 3.5 52.8 0.5 O24 C:MO7531 3.6 53.5 0.5 O5 B:MO7531 3.6 67.4 0.5 O22 C:MO7531 3.7 62.2 0.5 O11 C:MO7531 3.8 61.4 0.5 O6 B:MO7531 4.0 57.0 0.5 O1 B:MO7531 4.1 64.2 0.5 O7 C:MO7531 4.1 70.6 0.5 O4 C:MO7531 4.2 53.5 0.5 O18 C:MO7531 4.4 51.7 0.5 O12 B:MO7531 4.4 83.0 0.5 O16 C:MO7531 4.4 58.1 0.5 MO6 B:MO7531 4.4 72.5 0.5 O10 C:MO7531 4.5 72.0 0.5 O4 B:MO7531 4.5 65.1 0.5 O15 C:MO7531 4.5 49.6 0.5 O23 C:MO7531 4.5 48.3 0.5 MO2 C:MO7531 4.6 73.0 0.5 O21 C:MO7531 4.6 47.5 0.5 O17 B:MO7531 4.6 55.1 0.5 O13 B:MO7531 4.6 66.4 0.5 O22 B:MO7531 4.7 47.1 0.5 O8 B:MO7531 4.7 56.7 0.5 O21 B:MO7531 4.7 53.1 0.5 O20 B:MO7531 4.8 55.5 0.5

M.Zebisch, M.Krauss, P.Schafer, N.Strater. Crystallographic Evidence For A Domain Motion in Rat Nucleoside Triphosphate Diphosphohydrolase (Ntpdase) 1. J. Mol. Biol. V. 415 288 2012.
ISSN: ESSN 1089-8638
PubMed: 22100451
DOI: 10.1016/J.JMB.2011.10.050