Magnesium in PDB 1rrp: Structure of the Ran-Gppnhp-RANBD1 Complex

The structure of Structure of the Ran-Gppnhp-RANBD1 Complex, PDB code: 1rrp was solved by I.R.Vetter, C.Nowak, T.Nishimoto, J.Kuhlmann, A.Wittinghofer, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	12.50 / 2.96
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	121.339, 139.463, 91.654, 90.00, 135.78, 90.00
R / Rfree (%)	25.2 / 30.4

The binding sites of Magnesium atom in the Structure of the Ran-Gppnhp-RANBD1 Complex (pdb code 1rrp). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Structure of the Ran-Gppnhp-RANBD1 Complex, PDB code: 1rrp:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Structure of the Ran-Gppnhp-RANBD1 Complex


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 Ran-Gppnhp-RANBD1 Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg251 b:39.4 occ:1.00 O2B A:GNP250 2.6 31.7 1.0 OG1 A:THR24 2.7 22.5 1.0 OG1 A:THR42 2.7 57.6 1.0 O2G A:GNP250 2.8 54.9 1.0 CB A:THR24 3.1 47.9 1.0 O A:HOH450 3.3 53.9 1.0 O3A A:GNP250 3.4 14.3 1.0 O2A A:GNP250 3.4 35.1 1.0 PB A:GNP250 3.4 40.6 1.0 PG A:GNP250 3.5 67.2 1.0 O A:VAL40 3.5 28.9 1.0 PA A:GNP250 3.7 36.9 1.0 N A:THR42 3.7 29.0 1.0 O1G A:GNP250 3.7 41.1 1.0 N3B A:GNP250 3.8 50.2 1.0 CG2 A:THR24 3.9 21.9 1.0 O1A A:GNP250 3.9 56.6 1.0 CB A:THR42 4.0 63.6 1.0 C A:ALA41 4.2 30.7 1.0 C A:VAL40 4.2 13.4 1.0 CA A:ALA41 4.3 31.4 1.0 CA A:THR42 4.3 53.0 1.0 CA A:THR24 4.4 38.2 1.0 CE1 A:TYR39 4.4 62.6 1.0 N A:THR24 4.6 39.7 1.0 N A:ALA41 4.6 26.4 1.0 O1B A:GNP250 4.8 38.7 1.0 CD1 A:TYR39 4.9 53.5 1.0 O3G A:GNP250 5.0 38.8 1.0

Magnesium binding site 2 out of 2 in the Structure of the Ran-Gppnhp-RANBD1 Complex


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 Ran-Gppnhp-RANBD1 Complex within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg251 b:44.3 occ:1.00 O2B C:GNP250 2.6 43.0 1.0 OG1 C:THR24 2.7 36.8 1.0 OG1 C:THR42 2.7 37.1 1.0 O2G C:GNP250 2.8 57.4 1.0 CB C:THR24 3.1 30.0 1.0 O3A C:GNP250 3.3 25.7 1.0 O2A C:GNP250 3.4 9.9 1.0 PB C:GNP250 3.4 46.4 1.0 PG C:GNP250 3.5 58.3 1.0 O C:VAL40 3.5 36.0 1.0 O1G C:GNP250 3.7 50.1 1.0 PA C:GNP250 3.7 49.1 1.0 N C:THR42 3.7 59.6 1.0 N3B C:GNP250 3.8 53.7 1.0 CG2 C:THR24 3.8 24.1 1.0 O1A C:GNP250 3.9 27.9 1.0 CB C:THR42 4.0 60.9 1.0 C C:ALA41 4.2 62.4 1.0 C C:VAL40 4.2 48.3 1.0 CA C:ALA41 4.2 63.9 1.0 CA C:THR42 4.3 54.0 1.0 CA C:THR24 4.4 9.0 1.0 CE1 C:TYR39 4.5 45.7 1.0 N C:THR24 4.6 32.7 1.0 N C:ALA41 4.6 71.6 1.0 O1B C:GNP250 4.8 14.8 1.0 CD1 C:TYR39 4.9 8.4 1.0 O3G C:GNP250 4.9 41.5 1.0

I.R.Vetter, C.Nowak, T.Nishimoto, J.Kuhlmann, A.Wittinghofer. Structure of A Ran-Binding Domain Complexed with Ran Bound to A Gtp Analogue: Implications For Nuclear Transport. Nature V. 398 39 1999.
ISSN: ISSN 0028-0836
PubMed: 10078529
DOI: 10.1038/17969