Magnesium in PDB 4dxp: Crystal Structure of A Reconstructed Kaede-Type Red Fluorescent Protein, Lea X121

The structure of Crystal Structure of A Reconstructed Kaede-Type Red Fluorescent Protein, Lea X121, PDB code: 4dxp was solved by H.Kim, R.Fromme, R.M.Wachter, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	34.05 / 1.75
Space group	I 2 2 2
Cell size a, b, c (Å), α, β, γ (°)	49.040, 79.180, 118.040, 90.00, 90.00, 90.00
R / Rfree (%)	17.1 / 22.6

The binding sites of Magnesium atom in the Crystal Structure of A Reconstructed Kaede-Type Red Fluorescent Protein, Lea X121 (pdb code 4dxp). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structure of A Reconstructed Kaede-Type Red Fluorescent Protein, Lea X121, PDB code: 4dxp:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of A Reconstructed Kaede-Type Red Fluorescent Protein, Lea X121


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 A Reconstructed Kaede-Type Red Fluorescent Protein, Lea X121 within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg301 b:38.7 occ:1.00 OD1 A:ASN19 2.3 36.8 1.0 CG A:ASN19 3.1 33.6 1.0 N A:PHE125 3.2 20.4 1.0 CA A:ASN19 3.2 29.0 1.0 CB A:ASN19 3.3 30.2 1.0 N A:ASN124 3.3 18.0 1.0 N A:ASN19 3.6 27.0 1.0 C A:VAL123 3.7 18.4 1.0 CB A:PHE125 3.7 21.3 1.0 CA A:VAL123 3.9 17.4 1.0 CD2 A:PHE125 3.9 21.8 1.0 CA A:PHE125 3.9 21.6 1.0 O A:PHE125 4.0 23.2 1.0 CA A:ASN124 4.2 20.4 1.0 C A:ASN124 4.2 20.1 1.0 CG A:PHE125 4.3 20.2 1.0 O A:GLY122 4.3 16.4 1.0 ND2 A:ASN19 4.4 35.5 1.0 O A:VAL123 4.4 15.5 1.0 N A:VAL123 4.4 17.7 1.0 C A:PHE125 4.5 23.0 1.0 O A:HOH468 4.5 38.4 1.0 C A:ASN19 4.6 28.7 1.0 C A:GLY122 4.6 18.0 1.0 C A:VAL18 4.8 25.4 1.0 SD A:MET132 4.9 31.1 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of A Reconstructed Kaede-Type Red Fluorescent Protein, Lea X121


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 A Reconstructed Kaede-Type Red Fluorescent Protein, Lea X121 within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg302 b:30.7 occ:1.00 O A:HOH437 2.8 29.3 1.0 O A:ASP172 2.8 17.3 1.0 OG A:SER92 2.9 17.1 1.0 OG1 A:THR94 2.9 21.6 1.0 O A:SER92 3.2 16.2 1.0 C A:SER92 3.5 16.4 1.0 N A:THR94 3.6 15.6 1.0 CB A:THR94 3.6 17.1 1.0 CB A:SER92 3.6 16.6 1.0 C A:ASP172 3.8 17.8 1.0 N A:LYS174 3.9 14.4 1.0 N A:MET93 3.9 17.0 1.0 C A:MET93 4.2 17.4 1.0 CA A:MET93 4.2 17.8 1.0 CA A:THR94 4.2 17.0 1.0 CA A:SER92 4.2 15.9 1.0 C A:PHE173 4.2 15.2 1.0 CA A:PHE173 4.3 16.3 1.0 O A:HOH467 4.3 27.9 1.0 CB A:LYS174 4.4 14.3 1.0 N A:PHE173 4.4 17.4 1.0 CB A:ASP172 4.7 20.2 1.0 O A:HOH405 4.7 23.4 1.0 CA A:LYS174 4.8 13.7 1.0 CA A:ASP172 4.8 18.7 1.0 CG2 A:THR94 4.9 17.9 1.0 O A:PHE173 5.0 15.0 1.0

H.Kim, T.Zou, C.Modi, K.Dorner, T.J.Grunkemeyer, L.Chen, R.Fromme, M.V.Matz, S.B.Ozkan, R.M.Wachter. A Hinge Migration Mechanism Unlocks the Evolution of Green-to-Red Photoconversion in Gfp-Like Proteins. Structure V. 23 34 2015.
ISSN: ISSN 0969-2126
PubMed: 25565105
DOI: 10.1016/J.STR.2014.11.011