Magnesium in PDB 6y32: Structure of the Gtpase Heterodimer of Human SRP54 and Sralpha

The structure of Structure of the Gtpase Heterodimer of Human SRP54 and Sralpha, PDB code: 6y32 was solved by K.D.Juaire, M.M.M.Becker, K.Wild, I.Sinning, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.55 / 2.60
Space group	P 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	155.825, 70.634, 172.573, 90.00, 116.81, 90.00
R / Rfree (%)	14.9 / 18.4

The binding sites of Magnesium atom in the Structure of the Gtpase Heterodimer of Human SRP54 and Sralpha (pdb code 6y32). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 8 binding sites of Magnesium where determined in the Structure of the Gtpase Heterodimer of Human SRP54 and Sralpha, PDB code: 6y32:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Magnesium binding site 1 out of 8 in the Structure of the Gtpase Heterodimer of Human SRP54 and Sralpha


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of the Gtpase Heterodimer of Human SRP54 and Sralpha within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg302 b:35.8 occ:1.00 O3G A:GNP301 2.0 36.4 1.0 O A:HOH418 2.0 36.7 1.0 O2B A:GNP301 2.1 38.8 1.0 OG1 A:THR115 2.3 48.0 1.0 O A:HOH412 2.3 19.2 1.0 O A:HOH408 2.4 36.0 1.0 PG A:GNP301 3.1 38.7 1.0 PB A:GNP301 3.2 40.4 1.0 CB A:THR115 3.2 45.7 1.0 N3B A:GNP301 3.3 36.7 1.0 O2A A:GNP301 3.6 44.3 1.0 O2G A:GNP301 3.8 38.3 1.0 N A:THR115 4.0 45.9 1.0 CD A:ARG141 4.1 39.7 1.0 CA A:THR115 4.2 44.9 1.0 OE1 A:GLN147 4.2 42.6 1.0 O1B A:GNP301 4.2 45.6 1.0 OD2 A:ASP138 4.2 53.9 1.0 O3A A:GNP301 4.2 50.0 1.0 CG2 A:THR115 4.3 44.8 1.0 O1G A:GNP301 4.3 38.6 1.0 PA A:GNP301 4.3 41.8 1.0 OD2 A:ASP190 4.3 43.6 1.0 OD1 A:ASP190 4.4 47.3 1.0 NH1 A:ARG141 4.5 49.7 1.0 O A:HOH405 4.5 41.5 1.0 NE A:ARG141 4.6 43.9 1.0 NZ A:LYS114 4.7 38.9 1.0 O A:THR191 4.7 40.8 1.0 CE A:LYS114 4.7 39.5 1.0 O1A A:GNP301 4.8 42.1 1.0 CZ A:ARG141 4.8 46.1 1.0 CG A:ASP190 4.8 44.8 1.0

Magnesium binding site 2 out of 8 in the Structure of the Gtpase Heterodimer of Human SRP54 and Sralpha


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of the Gtpase Heterodimer of Human SRP54 and Sralpha within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg702 b:30.9 occ:1.00 O B:HOH813 1.9 31.4 1.0 OG B:SER432 1.9 42.1 1.0 O B:HOH835 1.9 32.1 1.0 O1G B:GNP701 2.1 37.1 1.0 O2B B:GNP701 2.3 42.1 1.0 O B:HOH834 2.3 27.5 1.0 CB B:SER432 3.2 36.8 1.0 PG B:GNP701 3.4 36.0 1.0 PB B:GNP701 3.4 35.7 1.0 N3B B:GNP701 3.7 36.7 1.0 OD2 B:ASP520 3.8 36.4 1.0 NH1 B:ARG458 3.8 34.6 1.0 N B:SER432 3.9 42.6 1.0 OD1 B:ASP520 3.9 36.5 1.0 OD2 B:ASP455 4.1 45.3 1.0 CA B:SER432 4.1 41.0 1.0 O1B B:GNP701 4.2 34.9 1.0 O2G B:GNP701 4.2 32.5 1.0 CG B:ASP520 4.3 37.5 1.0 OE1 B:GLN464 4.4 53.4 1.0 O B:THR521 4.4 32.8 1.0 O B:HOH809 4.4 45.7 1.0 O3G B:GNP701 4.4 30.0 1.0 O2A B:GNP701 4.4 45.5 1.0 O B:HOH827 4.5 69.0 1.0 CE B:LYS431 4.5 41.5 1.0 O3A B:GNP701 4.6 43.0 1.0 CB B:LYS431 4.6 33.1 1.0 NZ B:LYS431 4.7 33.1 1.0 O1A B:GNP701 4.7 25.4 1.0 PA B:GNP701 4.8 36.5 1.0 C B:LYS431 4.9 40.9 1.0 NE2 B:GLN464 4.9 52.4 1.0 CG B:ASP455 5.0 39.8 1.0

Magnesium binding site 3 out of 8 in the Structure of the Gtpase Heterodimer of Human SRP54 and Sralpha


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structure of the Gtpase Heterodimer of Human SRP54 and Sralpha within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg302 b:32.1 occ:1.00 OG1 C:THR115 1.9 56.2 1.0 O C:HOH424 1.9 35.2 1.0 O C:HOH413 2.0 35.6 1.0 O2B C:GNP301 2.3 47.9 1.0 O1G C:GNP301 2.3 35.6 1.0 O C:HOH422 2.5 24.9 1.0 CB C:THR115 3.2 51.7 1.0 PB C:GNP301 3.6 44.5 1.0 PG C:GNP301 3.7 38.9 1.0 OD2 C:ASP190 3.7 52.5 1.0 N C:THR115 3.8 52.4 1.0 OD1 C:ASP190 3.9 52.8 1.0 OD2 C:ASP138 4.0 46.6 1.0 CA C:THR115 4.0 50.8 1.0 N3B C:GNP301 4.0 39.5 1.0 CG2 C:THR115 4.2 40.8 1.0 CG C:ASP190 4.2 50.8 1.0 O1B C:GNP301 4.2 39.7 1.0 OE1 C:GLN147 4.3 51.8 1.0 O C:THR191 4.4 39.0 1.0 CD C:ARG141 4.4 38.5 1.0 O3G C:GNP301 4.6 27.0 1.0 O C:HOH435 4.7 35.9 1.0 O2G C:GNP301 4.7 39.9 1.0 CE C:LYS114 4.7 37.9 1.0 CB C:LYS114 4.7 49.5 1.0 O3A C:GNP301 4.8 49.1 1.0 C C:LYS114 4.8 51.7 1.0 NZ C:LYS114 4.9 37.4 1.0 O2A C:GNP301 4.9 37.9 1.0 O1A C:GNP301 5.0 35.1 1.0 CG C:ASP138 5.0 43.9 1.0

Magnesium binding site 4 out of 8 in the Structure of the Gtpase Heterodimer of Human SRP54 and Sralpha


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Structure of the Gtpase Heterodimer of Human SRP54 and Sralpha within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg702 b:34.9 occ:1.00 OG D:SER432 1.9 57.9 1.0 O1G D:GNP701 2.1 41.3 1.0 O D:HOH805 2.2 31.7 1.0 O2B D:GNP701 2.3 35.4 1.0 O D:HOH807 2.4 29.7 1.0 O D:HOH826 2.5 23.8 1.0 CB D:SER432 3.3 54.7 1.0 PG D:GNP701 3.4 43.1 1.0 PB D:GNP701 3.4 44.1 1.0 O D:HOH803 3.6 56.1 1.0 N3B D:GNP701 3.7 62.3 1.0 N D:SER432 3.8 53.6 1.0 NH1 D:ARG458 3.9 51.3 1.0 OD2 D:ASP520 4.0 48.9 1.0 CA D:SER432 4.1 52.8 1.0 OD1 D:ASP520 4.1 49.9 1.0 OD2 D:ASP455 4.2 39.5 1.0 O3G D:GNP701 4.3 35.6 1.0 O1B D:GNP701 4.3 43.2 1.0 O2A D:GNP701 4.4 42.5 1.0 CE D:LYS431 4.4 35.8 1.0 O2G D:GNP701 4.4 45.2 1.0 CB D:LYS431 4.5 43.6 1.0 O3A D:GNP701 4.5 49.2 1.0 CG D:ASP520 4.5 53.1 1.0 O D:THR521 4.6 44.8 1.0 OE1 D:GLN464 4.6 51.5 1.0 NZ D:LYS431 4.6 35.7 1.0 O1A D:GNP701 4.7 28.1 1.0 PA D:GNP701 4.7 36.9 1.0 C D:LYS431 4.8 48.5 1.0 O D:HOH818 4.8 52.0 1.0

Magnesium binding site 5 out of 8 in the Structure of the Gtpase Heterodimer of Human SRP54 and Sralpha


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Structure of the Gtpase Heterodimer of Human SRP54 and Sralpha within 5.0Å range: probe atom residue distance (Å) B Occ E:Mg302 b:38.7 occ:1.00 OG1 E:THR115 2.0 60.5 1.0 O E:HOH416 2.0 37.3 1.0 O E:HOH403 2.1 38.4 1.0 O2B E:GNP301 2.1 44.7 1.0 O E:HOH421 2.3 27.8 1.0 O1G E:GNP301 2.4 29.0 1.0 CB E:THR115 3.0 53.3 1.0 PB E:GNP301 3.2 47.8 1.0 N3B E:GNP301 3.4 37.3 1.0 PG E:GNP301 3.4 32.7 1.0 OE1 E:GLN147 3.7 54.4 1.0 N E:THR115 3.8 48.7 1.0 CA E:THR115 3.9 49.6 1.0 CD E:ARG141 3.9 33.2 1.0 CG2 E:THR115 4.0 51.0 1.0 O2A E:GNP301 4.1 44.1 1.0 O1B E:GNP301 4.2 42.6 1.0 O3A E:GNP301 4.3 51.4 1.0 OD2 E:ASP190 4.3 53.3 1.0 O3G E:GNP301 4.3 25.1 1.0 OD2 E:ASP138 4.3 39.5 1.0 O E:HOH423 4.3 38.4 1.0 NE E:ARG141 4.4 37.7 1.0 PA E:GNP301 4.4 48.7 1.0 OD1 E:ASP190 4.5 52.8 1.0 O2G E:GNP301 4.5 27.9 1.0 O1A E:GNP301 4.6 43.5 1.0 NH1 E:ARG141 4.6 47.9 1.0 CD E:GLN147 4.7 53.4 1.0 CZ E:ARG141 4.8 40.1 1.0 CG E:ASP190 4.9 52.3 1.0 O E:HOH436 4.9 31.6 1.0 C E:LYS114 4.9 45.3 1.0 CB E:LYS114 4.9 32.9 1.0

Magnesium binding site 6 out of 8 in the Structure of the Gtpase Heterodimer of Human SRP54 and Sralpha


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Structure of the Gtpase Heterodimer of Human SRP54 and Sralpha within 5.0Å range: probe atom residue distance (Å) B Occ F:Mg702 b:31.4 occ:1.00 OG F:SER432 2.0 39.4 1.0 O F:HOH810 2.0 30.0 1.0 O F:HOH811 2.1 29.0 1.0 O3G F:GNP701 2.1 44.8 1.0 O F:HOH831 2.1 35.9 1.0 O2B F:GNP701 2.5 40.4 1.0 CB F:SER432 3.2 37.4 1.0 OD2 F:ASP520 3.5 43.2 1.0 PG F:GNP701 3.5 55.6 1.0 NH1 F:ARG458 3.6 34.6 1.0 PB F:GNP701 3.7 56.0 1.0 N F:SER432 3.9 43.1 1.0 N3B F:GNP701 3.9 98.1 1.0 OD1 F:ASP520 4.0 45.1 1.0 CA F:SER432 4.1 40.9 1.0 OD2 F:ASP455 4.1 46.6 1.0 CG F:ASP520 4.1 47.0 1.0 O F:THR521 4.3 36.1 1.0 O1G F:GNP701 4.3 45.3 1.0 O F:HOH804 4.4 73.5 1.0 CB F:LYS431 4.5 40.4 1.0 O1B F:GNP701 4.5 49.2 1.0 O2G F:GNP701 4.5 37.5 1.0 CE F:LYS431 4.6 33.8 1.0 O2A F:GNP701 4.6 48.9 1.0 OE1 F:GLN464 4.7 50.1 1.0 NZ F:LYS431 4.8 26.6 1.0 CZ F:ARG458 4.8 35.9 1.0 CB F:ASP455 4.8 35.3 1.0 O3A F:GNP701 4.9 52.9 1.0 C F:LYS431 4.9 39.2 1.0 CG F:ASP455 4.9 42.5 1.0

Magnesium binding site 7 out of 8 in the Structure of the Gtpase Heterodimer of Human SRP54 and Sralpha


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Structure of the Gtpase Heterodimer of Human SRP54 and Sralpha within 5.0Å range: probe atom residue distance (Å) B Occ G:Mg302 b:30.5 occ:1.00 O G:HOH412 1.9 23.2 1.0 OG1 G:THR115 2.0 51.5 1.0 O G:HOH415 2.0 38.9 1.0 O3G G:GNP301 2.4 40.0 1.0 O2B G:GNP301 2.7 33.0 1.0 CB G:THR115 3.3 47.1 1.0 OD2 G:ASP138 3.5 58.5 1.0 OD2 G:ASP190 3.7 50.7 1.0 PG G:GNP301 3.7 38.7 1.0 CD G:ARG141 3.9 40.1 1.0 PB G:GNP301 3.9 37.6 1.0 CG2 G:THR115 4.1 45.1 1.0 N3B G:GNP301 4.1 39.8 1.0 OD1 G:ASP190 4.1 51.8 1.0 O G:HOH404 4.2 30.0 1.0 N G:THR115 4.2 49.0 1.0 CA G:THR115 4.3 47.9 1.0 CG G:ASP190 4.3 52.0 1.0 OE1 G:GLN147 4.4 54.4 1.0 O G:THR191 4.4 50.4 1.0 O2A G:GNP301 4.4 49.9 1.0 O2G G:GNP301 4.5 33.2 1.0 NE G:ARG141 4.5 44.3 1.0 CG G:ASP138 4.6 56.0 1.0 O1G G:GNP301 4.7 38.3 1.0 O1B G:GNP301 4.8 35.5 1.0 CB G:ASP138 4.8 52.1 1.0 CD G:GLN147 4.9 54.4 1.0 PA G:GNP301 5.0 49.6 1.0

Magnesium binding site 8 out of 8 in the Structure of the Gtpase Heterodimer of Human SRP54 and Sralpha


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Structure of the Gtpase Heterodimer of Human SRP54 and Sralpha within 5.0Å range: probe atom residue distance (Å) B Occ H:Mg702 b:29.7 occ:1.00 OG H:SER432 1.9 46.5 1.0 O H:HOH839 2.0 25.8 1.0 O H:HOH830 2.1 29.2 1.0 O2G H:GNP701 2.2 40.3 1.0 O2B H:GNP701 2.4 41.3 1.0 O H:HOH823 2.5 33.4 1.0 CB H:SER432 3.2 38.5 1.0 PG H:GNP701 3.4 43.7 1.0 PB H:GNP701 3.5 46.5 1.0 NH1 H:ARG458 3.6 44.1 1.0 N3B H:GNP701 3.7 76.3 1.0 N H:SER432 3.8 43.1 1.0 OD2 H:ASP520 3.9 39.8 1.0 O H:HOH838 4.0 35.1 1.0 CA H:SER432 4.0 38.9 1.0 O1B H:GNP701 4.2 35.4 1.0 O1G H:GNP701 4.3 34.6 1.0 OD2 H:ASP455 4.3 38.4 1.0 OD1 H:ASP520 4.3 38.5 1.0 OE1 H:GLN464 4.4 47.8 1.0 O1A H:GNP701 4.5 31.8 1.0 O3G H:GNP701 4.5 45.8 1.0 CB H:LYS431 4.5 45.8 1.0 O2A H:GNP701 4.5 38.8 1.0 CG H:ASP520 4.5 38.5 1.0 O H:HOH832 4.6 80.6 1.0 CE H:LYS431 4.7 40.5 1.0 O3A H:GNP701 4.7 47.3 1.0 O H:THR521 4.7 36.5 1.0 PA H:GNP701 4.7 38.9 1.0 CZ H:ARG458 4.8 45.4 1.0 C H:LYS431 4.8 41.8 1.0 NZ H:LYS431 4.9 34.5 1.0

K.D.Juaire, K.Lapouge, M.M.M.Becker, I.Kotova, M.Haas, R.Carapito, K.Wild, S.Bahram, I.Sinning. Structure of the Gtpase Heterodimer of Human SRP54 and Sralpha To Be Published.