Atomistry » Magnesium » PDB 1k9m-1kk2 » 1kby
Atomistry »
  Magnesium »
    PDB 1k9m-1kk2 »
      1kby »

Magnesium in PDB 1kby: Structure of Photosynthetic Reaction Center with Bacteriochlorophyll- Bacteriopheophytin Heterodimer

Protein crystallography data

The structure of Structure of Photosynthetic Reaction Center with Bacteriochlorophyll- Bacteriopheophytin Heterodimer, PDB code: 1kby was solved by A.Camara-Artigas, C.Magee, A.Goetsch, J.P.Allen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 27.07 / 2.50
Space group P 31 2 1
Cell size a, b, c (Å), α, β, γ (°) 142.310, 142.310, 187.590, 90.00, 90.00, 120.00
R / Rfree (%) 19.5 / 22.4

Other elements in 1kby:

The structure of Structure of Photosynthetic Reaction Center with Bacteriochlorophyll- Bacteriopheophytin Heterodimer also contains other interesting chemical elements:

Iron (Fe) 1 atom
Chlorine (Cl) 1 atom

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Structure of Photosynthetic Reaction Center with Bacteriochlorophyll- Bacteriopheophytin Heterodimer (pdb code 1kby). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the Structure of Photosynthetic Reaction Center with Bacteriochlorophyll- Bacteriopheophytin Heterodimer, PDB code: 1kby:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in 1kby

Go back to Magnesium Binding Sites List in 1kby
Magnesium binding site 1 out of 3 in the Structure of Photosynthetic Reaction Center with Bacteriochlorophyll- Bacteriopheophytin Heterodimer


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of Photosynthetic Reaction Center with Bacteriochlorophyll- Bacteriopheophytin Heterodimer within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Mg850

b:42.2
occ:1.00
MG L:BCL850 0.0 42.2 1.0
ND L:BCL850 2.0 42.0 1.0
NC L:BCL850 2.0 42.2 1.0
NA L:BCL850 2.1 44.3 1.0
NB L:BCL850 2.1 44.4 1.0
NE2 M:HIS182 2.6 34.8 1.0
C1B L:BCL850 3.0 45.8 1.0
C4A L:BCL850 3.0 45.8 1.0
C1C L:BCL850 3.0 41.3 1.0
C4D L:BCL850 3.1 41.6 1.0
C1D L:BCL850 3.1 40.0 1.0
C4C L:BCL850 3.1 39.7 1.0
C4B L:BCL850 3.1 45.1 1.0
C1A L:BCL850 3.2 45.1 1.0
CHB L:BCL850 3.3 45.3 1.0
CHC L:BCL850 3.3 42.9 1.0
CD2 M:HIS182 3.3 35.9 1.0
CHD L:BCL850 3.5 39.4 1.0
CHA L:BCL850 3.5 43.1 1.0
CE1 M:HIS182 3.7 36.6 1.0
C2B L:BCL850 4.2 45.8 1.0
C2D L:BCL850 4.3 40.0 1.0
C3A L:BCL850 4.3 47.1 1.0
C3D L:BCL850 4.3 41.0 1.0
C2C L:BCL850 4.4 38.8 1.0
C3C L:BCL850 4.4 38.3 1.0
C2A L:BCL850 4.4 48.5 1.0
CG M:HIS182 4.6 38.0 1.0
C3B L:BCL850 4.6 47.2 1.0
CE2 L:PHE181 4.6 33.9 1.0
OBB L:BPH854 4.7 43.6 1.0
ND1 M:HIS182 4.7 37.2 1.0
CBD L:BCL850 5.0 43.3 1.0

Magnesium binding site 2 out of 3 in 1kby

Go back to Magnesium Binding Sites List in 1kby
Magnesium binding site 2 out of 3 in the Structure of Photosynthetic Reaction Center with Bacteriochlorophyll- Bacteriopheophytin Heterodimer


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of Photosynthetic Reaction Center with Bacteriochlorophyll- Bacteriopheophytin Heterodimer within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Mg851

b:38.5
occ:1.00
MG L:BCL851 0.0 38.5 1.0
ND L:BCL851 2.0 39.4 1.0
NC L:BCL851 2.1 40.3 1.0
NB L:BCL851 2.1 36.6 1.0
NA L:BCL851 2.1 37.4 1.0
NE2 L:HIS173 2.6 25.1 1.0
C4A L:BCL851 3.0 36.3 1.0
C1B L:BCL851 3.0 36.2 1.0
C4D L:BCL851 3.1 40.1 1.0
C1D L:BCL851 3.1 39.7 1.0
C1C L:BCL851 3.1 39.9 1.0
C4C L:BCL851 3.1 40.4 1.0
C4B L:BCL851 3.1 36.6 1.0
C1A L:BCL851 3.2 37.1 1.0
CHB L:BCL851 3.3 35.8 1.0
CHC L:BCL851 3.4 38.0 1.0
CBB M:BPH852 3.4 34.6 1.0
CHD L:BCL851 3.5 39.6 1.0
CAB M:BPH852 3.5 35.7 1.0
CHA L:BCL851 3.5 39.1 1.0
CE1 L:HIS173 3.5 25.6 1.0
OBB M:BPH852 3.6 35.6 1.0
CD2 L:HIS173 3.7 26.2 1.0
C3B M:BPH852 4.3 35.4 1.0
C2D L:BCL851 4.3 41.4 1.0
C2B L:BCL851 4.3 36.8 1.0
C3D L:BCL851 4.3 41.0 1.0
C3A L:BCL851 4.3 35.8 1.0
C3B L:BCL851 4.4 36.2 1.0
C2C L:BCL851 4.4 39.0 1.0
C3C L:BCL851 4.4 39.5 1.0
C2A L:BCL851 4.5 35.9 1.0
ND1 L:HIS173 4.7 26.7 1.0
CG L:HIS173 4.8 27.5 1.0
CD2 L:PHE167 5.0 40.8 1.0

Magnesium binding site 3 out of 3 in 1kby

Go back to Magnesium Binding Sites List in 1kby
Magnesium binding site 3 out of 3 in the Structure of Photosynthetic Reaction Center with Bacteriochlorophyll- Bacteriopheophytin Heterodimer


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structure of Photosynthetic Reaction Center with Bacteriochlorophyll- Bacteriopheophytin Heterodimer within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Mg853

b:28.8
occ:1.00
MG L:BCL853 0.0 28.8 1.0
ND L:BCL853 2.0 25.0 1.0
NC L:BCL853 2.1 26.2 1.0
NA L:BCL853 2.1 26.9 1.0
NB L:BCL853 2.1 25.8 1.0
NE2 L:HIS153 2.9 43.5 1.0
C4A L:BCL853 3.0 28.3 1.0
C1C L:BCL853 3.0 26.9 1.0
C4D L:BCL853 3.1 26.6 1.0
C1B L:BCL853 3.1 26.3 1.0
C1D L:BCL853 3.1 25.9 1.0
C4C L:BCL853 3.1 25.6 1.0
C4B L:BCL853 3.1 26.6 1.0
C1A L:BCL853 3.2 28.9 1.0
CHB L:BCL853 3.3 26.4 1.0
CHC L:BCL853 3.3 27.2 1.0
CHD L:BCL853 3.5 24.4 1.0
CHA L:BCL853 3.5 28.7 1.0
CD2 L:HIS153 3.7 44.5 1.0
CE1 L:HIS153 4.0 43.6 1.0
C2D L:BCL853 4.3 26.7 1.0
C2B L:BCL853 4.3 27.2 1.0
OBB L:BPH855 4.3 43.4 1.0
C3D L:BCL853 4.3 28.1 1.0
C3A L:BCL853 4.3 29.9 1.0
C2C L:BCL853 4.4 28.1 1.0
C3C L:BCL853 4.4 26.8 1.0
C3B L:BCL853 4.4 27.9 1.0
C2A L:BCL853 4.4 30.6 1.0
CE2 M:TYR210 4.8 32.6 1.0
CAA L:BCL853 4.9 34.2 1.0
CG L:HIS153 4.9 45.0 1.0
CBD L:BCL853 5.0 30.2 1.0

Reference:

A.Camara-Artigas, C.Magee, A.Goetsch, J.P.Allen. The Structure of the Heterodimer Reaction Center From Rhodobacter Sphaeroides at 2.55 A Resolution. Photosynth.Res. V. 74 87 2002.
ISSN: ISSN 0166-8595
PubMed: 16228547
DOI: 10.1023/A:1020882402389
Page generated: Mon Dec 14 06:17:16 2020

Last articles

Zn in 7VD8
Zn in 7V1R
Zn in 7V1Q
Zn in 7VPF
Zn in 7T85
Zn in 7T5F
Zn in 7NF9
Zn in 7M4M
Zn in 7M4O
Zn in 7M4N
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy