Magnesium in PDB 3d38: Crystal Structure of New Trigonal Form of Photosynthetic Reaction Center From Blastochloris Viridis. Crystals Grown in Microfluidics By Detergent Capture.

The structure of Crystal Structure of New Trigonal Form of Photosynthetic Reaction Center From Blastochloris Viridis. Crystals Grown in Microfluidics By Detergent Capture., PDB code: 3d38 was solved by L.Li, S.H.M.Nachtergaele, A.M.Seddon, V.Tereshko, N.Ponomarenko, R.F.Ismagilov, Accelerated Technologies Center For Gene To 3Dstructure (Atcg3D), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 3.21
Space group	P 31 2 1
Cell size a, b, c (Å), α, β, γ (°)	241.171, 241.171, 113.391, 90.00, 90.00, 120.00
R / Rfree (%)	19.2 / 22.4

The structure of Crystal Structure of New Trigonal Form of Photosynthetic Reaction Center From Blastochloris Viridis. Crystals Grown in Microfluidics By Detergent Capture. also contains other interesting chemical elements:

Iron

(Fe)

5 atoms

The binding sites of Magnesium atom in the Crystal Structure of New Trigonal Form of Photosynthetic Reaction Center From Blastochloris Viridis. Crystals Grown in Microfluidics By Detergent Capture. (pdb code 3d38). 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 New Trigonal Form of Photosynthetic Reaction Center From Blastochloris Viridis. Crystals Grown in Microfluidics By Detergent Capture., PDB code: 3d38:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Crystal Structure of New Trigonal Form of Photosynthetic Reaction Center From Blastochloris Viridis. Crystals Grown in Microfluidics By Detergent Capture.


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 New Trigonal Form of Photosynthetic Reaction Center From Blastochloris Viridis. Crystals Grown in Microfluidics By Detergent Capture. within 5.0Å range: probe atom residue distance (Å) B Occ L:Mg400 b:39.5 occ:1.00 MG L:BCB400 0.0 39.5 1.0 ND L:BCB400 2.0 39.8 1.0 NB L:BCB400 2.1 38.9 1.0 NA L:BCB400 2.1 38.6 1.0 NC L:BCB400 2.1 39.6 1.0 NE2 L:HIS173 2.3 46.8 1.0 C4D L:BCB400 2.9 39.8 1.0 C4B L:BCB400 3.1 38.3 1.0 C1B L:BCB400 3.1 39.2 1.0 C1C L:BCB400 3.1 39.6 1.0 C1D L:BCB400 3.1 39.8 1.0 C4A L:BCB400 3.1 38.6 1.0 C1A L:BCB400 3.1 38.0 1.0 C4C L:BCB400 3.2 39.1 1.0 CE1 L:HIS173 3.2 47.0 1.0 CD2 L:HIS173 3.2 46.2 1.0 CHC L:BCB400 3.4 38.4 1.0 CHA L:BCB400 3.4 39.5 1.0 CHB L:BCB400 3.5 38.6 1.0 OBB M:BCB401 3.5 43.8 1.0 CAB M:BCB401 3.6 41.9 1.0 CBB M:BCB401 3.6 40.7 1.0 CHD L:BCB400 3.6 38.5 1.0 C3D L:BCB400 4.1 40.6 1.0 CD1 L:TRP167 4.2 46.2 1.0 C2D L:BCB400 4.3 40.5 1.0 NE1 L:TRP167 4.3 45.6 1.0 C3B L:BCB400 4.3 39.2 1.0 C2B L:BCB400 4.3 38.9 1.0 ND1 L:HIS173 4.3 46.6 1.0 C3B M:BCB401 4.4 41.1 1.0 C3A L:BCB400 4.4 38.4 1.0 CG L:HIS173 4.4 45.9 1.0 C2C L:BCB400 4.4 39.9 1.0 C3C L:BCB400 4.4 39.6 1.0 C2A L:BCB400 4.4 37.8 1.0 CBD L:BCB400 4.9 41.9 1.0

Magnesium binding site 2 out of 4 in the Crystal Structure of New Trigonal Form of Photosynthetic Reaction Center From Blastochloris Viridis. Crystals Grown in Microfluidics By Detergent Capture.


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 New Trigonal Form of Photosynthetic Reaction Center From Blastochloris Viridis. Crystals Grown in Microfluidics By Detergent Capture. within 5.0Å range: probe atom residue distance (Å) B Occ L:Mg401 b:42.9 occ:1.00 MG L:BCB401 0.0 42.9 1.0 NB L:BCB401 2.0 42.5 1.0 ND L:BCB401 2.0 43.1 1.0 NA L:BCB401 2.1 43.5 1.0 NC L:BCB401 2.1 43.6 1.0 NE2 L:HIS153 2.3 42.8 1.0 C4D L:BCB401 2.9 43.5 1.0 C4B L:BCB401 3.0 42.8 1.0 C1B L:BCB401 3.1 42.3 1.0 C4A L:BCB401 3.1 43.0 1.0 C1C L:BCB401 3.1 43.0 1.0 C1D L:BCB401 3.1 42.8 1.0 C1A L:BCB401 3.1 44.4 1.0 CD2 L:HIS153 3.2 43.1 1.0 C4C L:BCB401 3.2 43.1 1.0 CE1 L:HIS153 3.3 43.5 1.0 CHC L:BCB401 3.4 42.4 1.0 CHA L:BCB401 3.5 44.1 1.0 CHB L:BCB401 3.5 41.6 1.0 CHD L:BCB401 3.6 42.6 1.0 CBB L:BPB402 4.1 47.8 1.0 C3D L:BCB401 4.2 43.8 1.0 C3B L:BCB401 4.2 43.4 1.0 C2B L:BCB401 4.3 42.8 1.0 C2D L:BCB401 4.3 43.4 1.0 CG L:HIS153 4.3 43.2 1.0 ND1 L:HIS153 4.4 43.4 1.0 C3A L:BCB401 4.4 44.7 1.0 C2C L:BCB401 4.4 42.0 1.0 C2A L:BCB401 4.4 45.4 1.0 C3C L:BCB401 4.4 42.1 1.0 C20 L:BPB402 4.5 44.5 1.0 CE2 M:TYR208 4.7 47.8 1.0 CBA L:BCB401 4.8 50.8 1.0 CBD L:BCB401 4.9 44.7 1.0 CD2 L:LEU154 5.0 39.2 1.0

Magnesium binding site 3 out of 4 in the Crystal Structure of New Trigonal Form of Photosynthetic Reaction Center From Blastochloris Viridis. Crystals Grown in Microfluidics By Detergent Capture.


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 New Trigonal Form of Photosynthetic Reaction Center From Blastochloris Viridis. Crystals Grown in Microfluidics By Detergent Capture. within 5.0Å range: probe atom residue distance (Å) B Occ M:Mg400 b:45.9 occ:1.00 MG M:BCB400 0.0 45.9 1.0 NB M:BCB400 2.0 47.4 1.0 ND M:BCB400 2.0 44.1 1.0 NC M:BCB400 2.1 43.5 1.0 NA M:BCB400 2.1 47.2 1.0 NE2 M:HIS180 2.2 46.1 1.0 C4D M:BCB400 2.9 44.3 1.0 C4B M:BCB400 3.1 48.3 1.0 C1B M:BCB400 3.1 48.5 1.0 C1D M:BCB400 3.1 42.6 1.0 C4A M:BCB400 3.1 48.4 1.0 C1C M:BCB400 3.1 42.3 1.0 C4C M:BCB400 3.1 42.2 1.0 C1A M:BCB400 3.2 46.9 1.0 CE1 M:HIS180 3.2 47.0 1.0 CD2 M:HIS180 3.2 47.4 1.0 CHB M:BCB400 3.4 48.2 1.0 CHC M:BCB400 3.5 45.2 1.0 CHD M:BCB400 3.5 42.7 1.0 CHA M:BCB400 3.5 45.1 1.0 C3D M:BCB400 4.2 44.2 1.0 C2D M:BCB400 4.2 42.5 1.0 C3B M:BCB400 4.3 50.6 1.0 C2B M:BCB400 4.3 50.2 1.0 ND1 M:HIS180 4.3 48.9 1.0 CG M:HIS180 4.4 49.1 1.0 C2C M:BCB400 4.4 40.5 1.0 C3C M:BCB400 4.4 41.0 1.0 C3A M:BCB400 4.4 48.4 1.0 C2A M:BCB400 4.5 47.9 1.0 OBB M:BPB402 4.6 67.5 1.0 CE2 L:PHE181 4.7 45.7 1.0 CBA M:BCB400 4.8 55.0 1.0 CD1 M:ILE181 4.9 51.6 1.0 CBD M:BCB400 5.0 44.9 1.0

Magnesium binding site 4 out of 4 in the Crystal Structure of New Trigonal Form of Photosynthetic Reaction Center From Blastochloris Viridis. Crystals Grown in Microfluidics By Detergent Capture.


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 New Trigonal Form of Photosynthetic Reaction Center From Blastochloris Viridis. Crystals Grown in Microfluidics By Detergent Capture. within 5.0Å range: probe atom residue distance (Å) B Occ M:Mg401 b:37.3 occ:1.00 MG M:BCB401 0.0 37.3 1.0 ND M:BCB401 2.0 39.9 1.0 NB M:BCB401 2.0 39.1 1.0 NC M:BCB401 2.1 38.4 1.0 NA M:BCB401 2.1 38.4 1.0 NE2 M:HIS200 2.4 46.5 1.0 C4D M:BCB401 2.9 39.5 1.0 C4B M:BCB401 3.0 39.9 1.0 C1B M:BCB401 3.1 39.9 1.0 C1C M:BCB401 3.1 39.9 1.0 C1D M:BCB401 3.1 40.5 1.0 C4C M:BCB401 3.1 38.8 1.0 C4A M:BCB401 3.2 37.7 1.0 C1A M:BCB401 3.2 39.3 1.0 CD2 M:HIS200 3.2 46.5 1.0 CHC M:BCB401 3.4 40.0 1.0 CHA M:BCB401 3.4 40.3 1.0 CE1 M:HIS200 3.4 46.1 1.0 CHB M:BCB401 3.5 38.4 1.0 CHD M:BCB401 3.5 40.1 1.0 CBB L:BCB400 3.5 39.5 1.0 CAB L:BCB400 3.6 40.8 1.0 OBB L:BCB400 3.6 42.0 1.0 C3D M:BCB401 4.1 39.2 1.0 C3B M:BCB401 4.2 41.1 1.0 C2D M:BCB401 4.3 39.2 1.0 C2B M:BCB401 4.3 41.3 1.0 C3B L:BCB400 4.3 39.2 1.0 C2C M:BCB401 4.3 39.5 1.0 C3C M:BCB401 4.4 39.4 1.0 C3A M:BCB401 4.4 37.4 1.0 C2A M:BCB401 4.4 38.3 1.0 CG M:HIS200 4.5 46.5 1.0 ND1 M:HIS200 4.5 45.3 1.0 CD1 M:ILE204 4.8 37.7 1.0 CBD M:BCB401 4.9 41.8 1.0 CMC M:BCB401 4.9 38.3 1.0 C2B L:BCB400 5.0 38.9 1.0

L.Li, S.Nachtergaele, A.M.Seddon, V.Tereshko, N.Ponomarenko, R.F.Ismagilov. Simple Host-Guest Chemistry to Modulate the Process of Concentration and Crystallization of Membrane Proteins By Detergent Capture in A Microfluidic Device. J.Am.Chem.Soc. V. 130 14324 2008.
ISSN: ISSN 0002-7863
PubMed: 18831551
DOI: 10.1021/JA805361J