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Magnesium in PDB 3e22: Tubulin-Colchicine-Soblidotin: Stathmin-Like Domain Complex

Protein crystallography data

The structure of Tubulin-Colchicine-Soblidotin: Stathmin-Like Domain Complex, PDB code: 3e22 was solved by A.Cormier, M.Marchand, R.B.Ravelli, M.Knossow, B.Gigant, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 3.80
Space group P 65
Cell size a, b, c (Å), α, β, γ (°) 324.093, 324.093, 53.280, 90.00, 90.00, 120.00
R / Rfree (%) 22.9 / 29.5

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Tubulin-Colchicine-Soblidotin: Stathmin-Like Domain Complex (pdb code 3e22). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Tubulin-Colchicine-Soblidotin: Stathmin-Like Domain Complex, PDB code: 3e22:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 3e22

Go back to Magnesium Binding Sites List in 3e22
Magnesium binding site 1 out of 2 in the Tubulin-Colchicine-Soblidotin: Stathmin-Like Domain Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Tubulin-Colchicine-Soblidotin: Stathmin-Like Domain Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg601

b:93.8
occ:1.00
O2B A:GTP600 1.7 94.8 1.0
O3G A:GTP600 2.3 95.7 1.0
PB A:GTP600 3.0 95.7 1.0
N A:GLY144 3.1 95.9 1.0
O2G A:GTP600 3.1 95.7 1.0
PG A:GTP600 3.2 96.2 1.0
CA A:GLY144 3.2 95.5 1.0
N A:THR145 3.4 95.3 1.0
OD1 A:ASP98 3.4 95.6 1.0
CG2 A:THR145 3.5 95.7 1.0
O3A A:GTP600 3.5 95.6 1.0
O3B A:GTP600 3.5 95.6 1.0
N A:ASN101 3.6 95.5 1.0
CB A:ALA99 3.8 95.3 1.0
C A:GLY144 3.8 95.4 1.0
CA A:ASN101 4.2 95.5 1.0
NZ B:LYS254 4.2 95.1 1.0
O1B A:GTP600 4.2 95.3 1.0
C A:GLY143 4.2 95.8 1.0
N A:ALA99 4.2 95.0 1.0
N A:ALA100 4.3 95.2 1.0
CA A:ALA99 4.4 95.1 1.0
C A:ALA99 4.4 95.1 1.0
C A:ALA100 4.4 95.5 1.0
CG A:ASP98 4.5 95.5 1.0
ND2 A:ASN101 4.6 96.1 1.0
CA A:ALA100 4.6 95.5 1.0
O1G A:GTP600 4.6 94.8 1.0
CA A:THR145 4.6 95.7 1.0
CB A:THR145 4.7 95.9 1.0
OD2 A:ASP98 4.8 95.1 1.0
CA A:GLY143 4.9 95.6 1.0
O A:ALA99 5.0 94.9 1.0

Magnesium binding site 2 out of 2 in 3e22

Go back to Magnesium Binding Sites List in 3e22
Magnesium binding site 2 out of 2 in the Tubulin-Colchicine-Soblidotin: Stathmin-Like Domain Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Tubulin-Colchicine-Soblidotin: Stathmin-Like Domain Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg601

b:96.7
occ:1.00
O2B C:GTP600 1.8 95.0 1.0
O3G C:GTP600 2.2 95.8 1.0
PB C:GTP600 2.7 95.2 1.0
PG C:GTP600 2.9 95.8 1.0
O2G C:GTP600 3.0 95.5 1.0
N C:GLY144 3.1 95.8 1.0
O3A C:GTP600 3.2 95.3 1.0
O3B C:GTP600 3.2 95.3 1.0
CA C:GLY144 3.4 95.7 1.0
OD1 C:ASP98 3.5 95.5 1.0
N C:THR145 3.6 95.4 1.0
CG2 C:THR145 3.6 95.8 1.0
N C:ASN101 3.7 95.3 1.0
NZ D:LYS254 3.7 95.2 1.0
O1B C:GTP600 4.0 95.2 1.0
C C:GLY144 4.1 95.3 1.0
C C:GLY143 4.1 95.7 1.0
CB C:ALA99 4.1 95.1 1.0
CA C:ASN101 4.2 95.2 1.0
O1G C:GTP600 4.3 95.2 1.0
N C:ALA100 4.5 95.2 1.0
CG C:ASP98 4.5 95.5 1.0
N C:ALA99 4.6 95.2 1.0
ND2 C:ASN101 4.6 95.9 1.0
C C:ALA99 4.6 95.1 1.0
C C:ALA100 4.6 95.4 1.0
CA C:GLY143 4.6 95.7 1.0
CA C:ALA99 4.7 95.2 1.0
PA C:GTP600 4.7 94.4 1.0
OD2 C:ASP98 4.7 95.4 1.0
CA C:THR145 4.8 95.7 1.0
CB C:THR145 4.8 95.9 1.0
CA C:ALA100 4.9 95.4 1.0
CG C:ASN101 4.9 95.8 1.0
O C:GLY143 4.9 95.4 1.0

Reference:

A.Cormier, M.Marchand, R.B.Ravelli, M.Knossow, B.Gigant. Structural Insight Into the Inhibition of Tubulin By Vinca Domain Peptide Ligands Embo Rep. V. 9 1101 2008.
ISSN: ISSN 1469-221X
PubMed: 18787557
DOI: 10.1038/EMBOR.2008.171
Page generated: Mon Dec 14 08:05:29 2020

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