Atomistry » Magnesium » PDB 5o62-5odz » 5o7a
Atomistry »
  Magnesium »
    PDB 5o62-5odz »
      5o7a »

Magnesium in PDB 5o7a: Quinolin-6-Yloxyacetamides Are Microtubule Destabilizing Agents That Bind to the Colchicine Site of Tubulin

Protein crystallography data

The structure of Quinolin-6-Yloxyacetamides Are Microtubule Destabilizing Agents That Bind to the Colchicine Site of Tubulin, PDB code: 5o7a was solved by A.Sharma, N.Olieric, M.O.Steinmetz, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 47.98 / 2.50
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 104.907, 157.474, 180.678, 90.00, 90.00, 90.00
R / Rfree (%) 20.4 / 25.6

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Quinolin-6-Yloxyacetamides Are Microtubule Destabilizing Agents That Bind to the Colchicine Site of Tubulin (pdb code 5o7a). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Quinolin-6-Yloxyacetamides Are Microtubule Destabilizing Agents That Bind to the Colchicine Site of Tubulin, PDB code: 5o7a:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in 5o7a

Go back to Magnesium Binding Sites List in 5o7a
Magnesium binding site 1 out of 4 in the Quinolin-6-Yloxyacetamides Are Microtubule Destabilizing Agents That Bind to the Colchicine Site of Tubulin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Quinolin-6-Yloxyacetamides Are Microtubule Destabilizing Agents That Bind to the Colchicine Site of Tubulin within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg502

b:56.4
occ:1.00
O A:HOH615 2.0 51.6 1.0
O2G A:GTP501 2.1 45.0 1.0
O A:HOH608 2.2 43.8 1.0
O A:HOH610 2.3 50.9 1.0
O1B A:GTP501 2.7 43.8 1.0
PG A:GTP501 3.2 54.2 1.0
NZ B:LYS254 3.3 50.2 1.0
ND2 B:ASN249 3.7 80.8 1.0
PB A:GTP501 3.7 57.1 1.0
O1G A:GTP501 3.7 52.5 1.0
OE1 A:GLU71 3.7 68.7 1.0
O3B A:GTP501 3.7 65.9 1.0
OD2 A:ASP98 4.2 69.4 1.0
CG A:GLU71 4.2 67.2 1.0
O3A A:GTP501 4.2 62.1 1.0
CB A:ASP98 4.2 65.9 1.0
CD A:GLU71 4.3 68.7 1.0
O3G A:GTP501 4.4 48.7 1.0
OD1 A:ASP69 4.4 56.6 1.0
CB A:GLN11 4.5 51.9 1.0
OE1 A:GLN11 4.5 57.0 1.0
CE B:LYS254 4.5 49.0 1.0
CG B:ASN249 4.5 79.9 1.0
OD2 A:ASP69 4.5 58.2 1.0
O1A A:GTP501 4.6 43.6 1.0
CG A:ASP98 4.6 68.1 1.0
O B:ASN249 4.7 74.8 1.0
N A:GLN11 4.8 48.1 1.0
CG A:ASP69 4.9 57.3 1.0
O2B A:GTP501 4.9 60.1 1.0

Magnesium binding site 2 out of 4 in 5o7a

Go back to Magnesium Binding Sites List in 5o7a
Magnesium binding site 2 out of 4 in the Quinolin-6-Yloxyacetamides Are Microtubule Destabilizing Agents That Bind to the Colchicine Site of Tubulin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Quinolin-6-Yloxyacetamides Are Microtubule Destabilizing Agents That Bind to the Colchicine Site of Tubulin within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg503

b:49.1
occ:1.00
OE1 B:GLN11 2.1 50.9 1.0
O1A B:GDP501 2.6 56.0 1.0
O B:HOH615 2.7 44.6 1.0
OD2 B:ASP179 3.1 66.9 1.0
CD B:GLN11 3.3 51.9 1.0
H5' B:GDP501 3.4 50.9 1.0
PA B:GDP501 3.6 51.0 1.0
O3A B:GDP501 3.7 54.9 1.0
H8 B:GDP501 3.8 65.3 1.0
O C:HOH637 3.9 63.1 1.0
ND2 B:ASN101 3.9 43.5 1.0
OE1 C:GLU254 4.1 61.5 1.0
C5' B:GDP501 4.1 43.0 1.0
NE2 B:GLN11 4.1 54.2 1.0
O5' B:GDP501 4.2 40.5 1.0
H5'' B:GDP501 4.2 50.9 1.0
CB B:GLN11 4.3 48.8 1.0
CG B:ASP179 4.3 67.6 1.0
CG B:GLN11 4.4 51.5 1.0
OD1 B:ASN101 4.5 45.5 1.0
C8 B:GDP501 4.7 55.1 1.0
CG B:ASN101 4.7 44.4 1.0
O2A B:GDP501 4.8 54.0 1.0
CB B:ASP179 4.9 66.6 1.0
PB B:GDP501 4.9 50.5 1.0
O1B B:GDP501 5.0 46.4 1.0
CD C:GLU254 5.0 60.4 1.0

Magnesium binding site 3 out of 4 in 5o7a

Go back to Magnesium Binding Sites List in 5o7a
Magnesium binding site 3 out of 4 in the Quinolin-6-Yloxyacetamides Are Microtubule Destabilizing Agents That Bind to the Colchicine Site of Tubulin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Quinolin-6-Yloxyacetamides Are Microtubule Destabilizing Agents That Bind to the Colchicine Site of Tubulin within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg502

b:56.3
occ:1.00
O C:HOH608 2.2 37.2 1.0
O C:HOH605 2.2 45.8 1.0
O1G C:GTP501 2.7 36.2 1.0
O1B C:GTP501 2.9 39.7 1.0
O1A C:GTP501 3.2 48.7 1.0
NZ D:LYS254 3.3 52.2 1.0
O3A C:GTP501 3.4 53.5 1.0
O C:HOH606 3.5 41.5 1.0
OE1 C:GLN11 3.5 53.1 1.0
PB C:GTP501 3.6 51.3 1.0
CB C:GLN11 3.7 48.3 1.0
PA C:GTP501 3.9 53.6 1.0
PG C:GTP501 4.0 53.7 1.0
O3B C:GTP501 4.3 58.6 1.0
OE1 C:GLU71 4.3 64.2 1.0
CD C:GLN11 4.3 52.5 1.0
O D:ASN249 4.6 0.1 1.0
O2A C:GTP501 4.6 43.0 1.0
CE D:LYS254 4.6 49.9 1.0
CG C:GLN11 4.6 50.7 1.0
CB D:ASN249 4.7 0.3 1.0
N C:GLN11 4.7 42.2 1.0
ND2 D:ASN249 4.8 0.9 1.0
O2G C:GTP501 4.8 49.0 1.0
CA C:GLN11 4.8 45.2 1.0
O3G C:GTP501 4.9 49.1 1.0
O2B C:GTP501 4.9 40.4 1.0

Magnesium binding site 4 out of 4 in 5o7a

Go back to Magnesium Binding Sites List in 5o7a
Magnesium binding site 4 out of 4 in the Quinolin-6-Yloxyacetamides Are Microtubule Destabilizing Agents That Bind to the Colchicine Site of Tubulin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Quinolin-6-Yloxyacetamides Are Microtubule Destabilizing Agents That Bind to the Colchicine Site of Tubulin within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg503

b:31.9
occ:1.00
O1A D:GDP501 2.4 0.4 1.0
O D:HOH611 2.5 31.9 1.0
O D:HOH612 2.5 31.9 1.0
OE1 D:GLN11 2.7 86.7 1.0
O D:HOH617 2.9 31.9 1.0
CD D:GLN11 3.3 84.5 1.0
PA D:GDP501 3.6 83.1 1.0
O2A D:GDP501 3.7 74.7 1.0
CB D:GLN11 3.9 80.0 1.0
H8 D:GDP501 3.9 0.7 1.0
H5' D:GDP501 3.9 78.3 1.0
NE2 D:GLN11 3.9 85.5 1.0
CG D:GLN11 4.1 82.2 1.0
OD1 D:ASN101 4.3 94.7 1.0
O1B D:GDP501 4.5 90.8 1.0
C5' D:GDP501 4.6 65.9 1.0
O5' D:GDP501 4.6 72.2 1.0
O3A D:GDP501 4.7 90.8 1.0
C8 D:GDP501 4.7 85.4 1.0
H5'' D:GDP501 4.8 78.3 1.0
PB D:GDP501 4.9 76.1 1.0

Reference:

A.Sharma, G.Saez-Calvo, N.Olieric, F.De Asis Balaguer, I.Barasoain, C.Lamberth, J.F.Diaz, M.O.Steinmetz. Quinolin-6-Yloxyacetamides Are Microtubule Destabilizing Agents That Bind to the Colchicine Site of Tubulin. Int J Mol Sci V. 18 2017.
ISSN: ESSN 1422-0067
PubMed: 28640209
DOI: 10.3390/IJMS18071336
Page generated: Mon Sep 30 00:12:51 2024

Last articles

Fe in 2YXO
Fe in 2YRS
Fe in 2YXC
Fe in 2YNM
Fe in 2YVJ
Fe in 2YP1
Fe in 2YU2
Fe in 2YU1
Fe in 2YQB
Fe in 2YOO
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy