Magnesium in PDB 2ddd: Unique Behavior of A Histidine Responsible For An Engineered Green-to- Red Photoconversion Process

The structure of Unique Behavior of A Histidine Responsible For An Engineered Green-to- Red Photoconversion Process, PDB code: 2ddd was solved by H.Shimizu, H.Tsutsui, N.Nukina, A.Miyawaki, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	100.00 / 1.55
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	97.837, 118.410, 48.856, 90.00, 119.96, 90.00
R / Rfree (%)	17.5 / 19

The structure of Unique Behavior of A Histidine Responsible For An Engineered Green-to- Red Photoconversion Process also contains other interesting chemical elements:

Sodium

(Na)

2 atoms

The binding sites of Magnesium atom in the Unique Behavior of A Histidine Responsible For An Engineered Green-to- Red Photoconversion Process (pdb code 2ddd). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Unique Behavior of A Histidine Responsible For An Engineered Green-to- Red Photoconversion Process, PDB code: 2ddd:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Unique Behavior of A Histidine Responsible For An Engineered Green-to- Red Photoconversion Process


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Unique Behavior of A Histidine Responsible For An Engineered Green-to- Red Photoconversion Process within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1300 b:20.4 occ:1.00 OH A:TYR207 2.4 15.8 1.0 O A:HOH1367 2.4 15.4 1.0 O A:HOH1406 2.5 20.9 1.0 O A:HOH1348 2.6 12.4 1.0 O A:HOH1476 2.6 29.1 1.0 O A:HOH1553 2.7 38.4 1.0 CZ A:TYR207 3.6 12.6 1.0 NE2 A:HIS203 3.9 15.2 1.0 O A:VAL140 4.0 10.2 1.0 CE2 A:TYR207 4.0 12.7 1.0 O A:HOH1321 4.0 9.1 1.0 O A:HOH1459 4.1 27.0 1.0 O A:HOH1427 4.3 24.2 1.0 O A:HOH1500 4.3 31.6 1.0 O A:HOH1411 4.3 21.3 1.0 O A:THR139 4.3 10.5 1.0 O A:HOH1421 4.4 23.4 1.0 CD2 A:HIS203 4.4 14.7 1.0 CE1 A:HIS203 4.7 14.4 1.0 CE1 A:TYR207 4.8 13.3 1.0 C A:VAL140 4.8 10.4 1.0 O A:HOH1336 4.8 11.3 1.0 CA A:VAL140 4.9 8.8 1.0

Magnesium binding site 2 out of 2 in the Unique Behavior of A Histidine Responsible For An Engineered Green-to- Red Photoconversion Process


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Unique Behavior of A Histidine Responsible For An Engineered Green-to- Red Photoconversion Process within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg2300 b:21.2 occ:1.00 OH B:TYR207 2.4 16.6 1.0 O B:HOH2355 2.4 14.3 1.0 O B:HOH2344 2.5 12.5 1.0 O B:HOH2393 2.5 19.9 1.0 O B:HOH2480 2.6 31.6 1.0 O B:HOH2527 2.7 37.0 1.0 CZ B:TYR207 3.6 14.1 1.0 NE2 B:HIS203 3.9 15.3 1.0 O B:VAL140 4.0 10.2 1.0 CE2 B:TYR207 4.0 13.0 1.0 O B:HOH2307 4.0 7.9 1.0 O B:HOH2424 4.1 24.9 1.0 O B:THR139 4.3 10.4 1.0 O B:HOH2409 4.3 23.2 1.0 O B:HOH2395 4.4 20.8 1.0 O B:HOH2520 4.4 36.3 1.0 O B:HOH2441 4.4 26.4 1.0 CD2 B:HIS203 4.4 15.6 1.0 CE1 B:HIS203 4.7 14.5 1.0 CE1 B:TYR207 4.8 14.2 1.0 C B:VAL140 4.8 10.0 1.0 O B:HOH2337 4.8 11.8 1.0 CA B:VAL140 4.9 8.4 1.0

H.Tsutsui, H.Shimizu, H.Mizuno, N.Nukina, T.Furuta, A.Miyawaki. The E1 Mechanism in Photo-Induced Beta-Elimination Reactions For Green-to-Red Conversion of Fluorescent Proteins Chem.Biol. V. 16 1140 2009.
ISSN: ISSN 1074-5521
PubMed: 19942137
DOI: 10.1016/J.CHEMBIOL.2009.10.010