Magnesium in PDB 6mq9: Crystal Structure of Gtpase Domain of Human Septin 12 in Complex with Gmppnp

The structure of Crystal Structure of Gtpase Domain of Human Septin 12 in Complex with Gmppnp, PDB code: 6mq9 was solved by D.K.S.V.Castro, H.M.Pereira, J.Brandao-Neto, A.P.U.Ulian, R.C.Garratt, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	46.91 / 1.86
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	47.511, 70.340, 89.337, 74.55, 87.84, 78.10
R / Rfree (%)	19.2 / 23.3

The binding sites of Magnesium atom in the Crystal Structure of Gtpase Domain of Human Septin 12 in Complex with Gmppnp (pdb code 6mq9). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Crystal Structure of Gtpase Domain of Human Septin 12 in Complex with Gmppnp, PDB code: 6mq9:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Crystal Structure of Gtpase Domain of Human Septin 12 in Complex with Gmppnp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of Gtpase Domain of Human Septin 12 in Complex with Gmppnp within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg402 b:17.8 occ:1.00 O1G A:GNP401 2.0 17.2 1.0 OG A:SER63 2.1 17.2 1.0 O A:HOH527 2.1 17.3 1.0 O1B A:GNP401 2.1 13.5 1.0 O A:HOH563 2.1 16.8 1.0 OG1 A:THR89 2.1 25.9 1.0 CB A:SER63 3.1 19.5 1.0 PG A:GNP401 3.1 18.2 1.0 CB A:THR89 3.1 23.6 1.0 PB A:GNP401 3.3 17.9 1.0 N3B A:GNP401 3.4 16.7 1.0 N A:THR89 3.7 25.9 1.0 O2G A:GNP401 3.7 15.5 1.0 N A:SER63 3.9 18.1 1.0 O A:HOH510 3.9 41.9 1.0 OD2 A:ASP112 3.9 26.8 1.0 CA A:THR89 4.0 25.4 1.0 CA A:SER63 4.0 19.7 1.0 O2A A:GNP401 4.1 21.9 1.0 O A:PRO87 4.2 41.1 1.0 OD1 A:ASP112 4.2 23.9 1.0 O2B A:GNP401 4.3 13.1 1.0 CG2 A:THR89 4.3 23.8 1.0 O3A A:GNP401 4.3 14.7 1.0 O3G A:GNP401 4.4 26.4 1.0 CG A:ASP112 4.5 24.1 1.0 PA A:GNP401 4.5 17.0 1.0 O A:THR113 4.5 21.9 1.0 O1A A:GNP401 4.6 21.1 1.0 C A:GLN88 4.7 31.9 1.0 CG2 A:THR86 4.9 86.7 1.0 CA A:GLN88 4.9 33.3 1.0 C A:LYS62 5.0 18.1 1.0

Magnesium binding site 2 out of 4 in the Crystal Structure of Gtpase Domain of Human Septin 12 in Complex with Gmppnp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of Gtpase Domain of Human Septin 12 in Complex with Gmppnp within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg402 b:20.3 occ:1.00 O1G B:GNP401 2.0 20.4 1.0 O1B B:GNP401 2.1 16.3 1.0 OG B:SER63 2.1 20.9 1.0 O B:HOH542 2.1 20.5 1.0 OG1 B:THR89 2.1 23.4 1.0 O B:HOH552 2.2 22.8 1.0 PG B:GNP401 3.1 21.3 1.0 CB B:THR89 3.1 22.1 1.0 CB B:SER63 3.2 21.6 1.0 PB B:GNP401 3.3 18.6 1.0 N3B B:GNP401 3.3 18.8 1.0 N B:THR89 3.7 27.3 1.0 O2G B:GNP401 3.7 25.3 1.0 OD2 B:ASP112 3.9 29.1 1.0 N B:SER63 3.9 24.0 1.0 O2A B:GNP401 4.0 20.2 1.0 CA B:THR89 4.0 26.1 1.0 CA B:SER63 4.1 20.5 1.0 O B:HOH546 4.2 35.3 1.0 O3G B:GNP401 4.2 24.0 1.0 CG2 B:THR89 4.3 23.1 1.0 O3A B:GNP401 4.3 19.4 1.0 OD1 B:ASP112 4.3 23.5 1.0 O2B B:GNP401 4.3 18.9 1.0 O B:PRO87 4.3 32.1 1.0 PA B:GNP401 4.4 19.2 1.0 CG B:ASP112 4.5 25.9 1.0 O1A B:GNP401 4.5 26.4 1.0 O B:THR113 4.7 22.9 1.0 C B:GLN88 4.7 30.3 1.0 CA B:GLN88 5.0 30.5 1.0

Magnesium binding site 3 out of 4 in the Crystal Structure of Gtpase Domain of Human Septin 12 in Complex with Gmppnp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Crystal Structure of Gtpase Domain of Human Septin 12 in Complex with Gmppnp within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg402 b:21.0 occ:1.00 O2B C:GNP401 2.0 20.1 1.0 OG C:SER63 2.0 21.8 1.0 OG1 C:THR89 2.0 26.6 1.0 O2G C:GNP401 2.0 19.8 1.0 O C:HOH542 2.1 26.1 1.0 O C:HOH519 2.2 22.2 1.0 CB C:SER63 3.1 20.4 1.0 CB C:THR89 3.2 27.1 1.0 PG C:GNP401 3.2 22.5 1.0 PB C:GNP401 3.2 19.8 1.0 N3B C:GNP401 3.4 23.6 1.0 O3G C:GNP401 3.7 22.2 1.0 N C:THR89 3.7 29.5 1.0 N C:SER63 3.8 18.7 1.0 OD2 C:ASP112 3.9 25.3 1.0 CA C:SER63 4.0 18.2 1.0 CA C:THR89 4.0 29.1 1.0 O2A C:GNP401 4.0 20.3 1.0 O C:PRO87 4.1 47.2 1.0 OD1 C:ASP112 4.2 19.1 1.0 O C:HOH606 4.2 34.8 1.0 O1B C:GNP401 4.2 15.6 1.0 O3A C:GNP401 4.2 18.2 1.0 CG2 C:THR89 4.3 26.9 1.0 CG C:ASP112 4.4 23.2 1.0 PA C:GNP401 4.4 21.9 1.0 O1G C:GNP401 4.5 27.4 1.0 O1A C:GNP401 4.5 24.3 1.0 O C:THR113 4.6 22.3 1.0 C C:GLN88 4.8 31.4 1.0 CB C:LYS62 4.9 16.9 1.0 C C:LYS62 4.9 20.1 1.0 CA C:GLN88 5.0 39.4 1.0

Magnesium binding site 4 out of 4 in the Crystal Structure of Gtpase Domain of Human Septin 12 in Complex with Gmppnp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Crystal Structure of Gtpase Domain of Human Septin 12 in Complex with Gmppnp within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg402 b:20.7 occ:1.00 O2B D:GNP401 2.0 19.6 1.0 O3G D:GNP401 2.0 18.4 1.0 OG1 D:THR89 2.1 25.7 1.0 O D:HOH532 2.1 20.9 1.0 OG D:SER63 2.2 20.9 1.0 O D:HOH539 2.3 17.9 1.0 PG D:GNP401 3.1 20.8 1.0 CB D:THR89 3.1 25.6 1.0 PB D:GNP401 3.1 14.8 1.0 CB D:SER63 3.2 24.3 1.0 N3B D:GNP401 3.3 18.7 1.0 N D:THR89 3.6 33.8 1.0 O2G D:GNP401 3.6 29.0 1.0 N D:SER63 3.8 17.1 1.0 CA D:THR89 3.9 31.6 1.0 OD2 D:ASP112 4.0 28.9 1.0 O2A D:GNP401 4.0 15.5 1.0 CA D:SER63 4.1 21.7 1.0 O1B D:GNP401 4.1 17.0 1.0 O3A D:GNP401 4.2 19.2 1.0 CG2 D:THR89 4.2 24.9 1.0 OD1 D:ASP112 4.3 22.2 1.0 O1G D:GNP401 4.3 25.2 1.0 O D:PRO87 4.3 32.0 1.0 PA D:GNP401 4.4 16.3 1.0 O1A D:GNP401 4.5 18.6 1.0 CG D:ASP112 4.6 23.3 1.0 O D:THR113 4.6 19.8 1.0 C D:GLN88 4.7 32.0 1.0 CB D:LYS62 4.9 12.4 1.0 CA D:GLN88 4.9 32.2 1.0 C D:LYS62 4.9 20.8 1.0

D.K.S.V.Castro, H.M.Pereira, J.Brandao-Neto, A.P.U.Ulian, R.C.Garratt. Crystal Structure of Gtpase Domain of Human Septin 12 To Be Published.