Atomistry » Iron » PDB 2pgh-2q9u » 2prc
Atomistry »
  Iron »
    PDB 2pgh-2q9u »
      2prc »

Iron in PDB 2prc: Photosynthetic Reaction Center From Rhodopseudomonas Viridis (Ubiquinone-2 Complex)

Protein crystallography data

The structure of Photosynthetic Reaction Center From Rhodopseudomonas Viridis (Ubiquinone-2 Complex), PDB code: 2prc was solved by C.R.D.Lancaster, H.Michel, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 10.00 / 2.45
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 223.500, 223.500, 113.600, 90.00, 90.00, 90.00
R / Rfree (%) 18.2 / 22.9

Other elements in 2prc:

The structure of Photosynthetic Reaction Center From Rhodopseudomonas Viridis (Ubiquinone-2 Complex) also contains other interesting chemical elements:

Magnesium (Mg) 4 atoms

Iron Binding Sites:

The binding sites of Iron atom in the Photosynthetic Reaction Center From Rhodopseudomonas Viridis (Ubiquinone-2 Complex) (pdb code 2prc). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 5 binding sites of Iron where determined in the Photosynthetic Reaction Center From Rhodopseudomonas Viridis (Ubiquinone-2 Complex), PDB code: 2prc:
Jump to Iron binding site number: 1; 2; 3; 4; 5;

Iron binding site 1 out of 5 in 2prc

Go back to Iron Binding Sites List in 2prc
Iron binding site 1 out of 5 in the Photosynthetic Reaction Center From Rhodopseudomonas Viridis (Ubiquinone-2 Complex)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Photosynthetic Reaction Center From Rhodopseudomonas Viridis (Ubiquinone-2 Complex) within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe337

b:28.9
occ:1.00
FE C:HEM337 0.0 28.9 1.0
NE2 C:HIS91 1.9 31.0 1.0
NC C:HEM337 2.0 28.9 1.0
NB C:HEM337 2.0 29.4 1.0
ND C:HEM337 2.0 30.6 1.0
NA C:HEM337 2.1 28.7 1.0
SD C:MET74 2.2 27.9 1.0
CE1 C:HIS91 2.9 32.5 1.0
CD2 C:HIS91 3.0 32.4 1.0
C4C C:HEM337 3.0 29.2 1.0
C1C C:HEM337 3.0 29.2 1.0
C1B C:HEM337 3.0 30.0 1.0
C4B C:HEM337 3.0 28.4 1.0
C1D C:HEM337 3.1 30.8 1.0
C4A C:HEM337 3.1 30.4 1.0
C1A C:HEM337 3.1 29.8 1.0
C4D C:HEM337 3.1 30.4 1.0
CHD C:HEM337 3.4 30.3 1.0
CHB C:HEM337 3.4 29.6 1.0
CHC C:HEM337 3.4 27.8 1.0
CE C:MET74 3.5 25.4 1.0
CHA C:HEM337 3.5 30.4 1.0
CG C:MET74 3.6 23.8 1.0
ND1 C:HIS91 4.0 33.5 1.0
CG C:HIS91 4.1 33.1 1.0
C3C C:HEM337 4.2 28.6 1.0
C2C C:HEM337 4.2 28.6 1.0
C2B C:HEM337 4.3 28.5 1.0
C3B C:HEM337 4.3 28.0 1.0
CB C:MET74 4.3 24.5 1.0
C3A C:HEM337 4.3 32.1 1.0
C2D C:HEM337 4.3 30.4 1.0
C2A C:HEM337 4.3 31.1 1.0
C3D C:HEM337 4.3 28.8 1.0

Iron binding site 2 out of 5 in 2prc

Go back to Iron Binding Sites List in 2prc
Iron binding site 2 out of 5 in the Photosynthetic Reaction Center From Rhodopseudomonas Viridis (Ubiquinone-2 Complex)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Photosynthetic Reaction Center From Rhodopseudomonas Viridis (Ubiquinone-2 Complex) within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe338

b:28.1
occ:1.00
FE C:HEM338 0.0 28.1 1.0
NE2 C:HIS136 2.0 26.7 1.0
ND C:HEM338 2.0 28.3 1.0
NA C:HEM338 2.0 28.1 1.0
NB C:HEM338 2.0 26.4 1.0
NC C:HEM338 2.1 26.8 1.0
SD C:MET110 2.1 29.2 1.0
CE1 C:HIS136 3.0 26.1 1.0
C4A C:HEM338 3.0 27.2 1.0
C1D C:HEM338 3.0 29.6 1.0
CD2 C:HIS136 3.0 26.0 1.0
C1B C:HEM338 3.0 28.1 1.0
C4D C:HEM338 3.1 29.1 1.0
C4C C:HEM338 3.1 23.2 1.0
C1A C:HEM338 3.1 27.8 1.0
C4B C:HEM338 3.1 26.5 1.0
C1C C:HEM338 3.1 25.0 1.0
CHB C:HEM338 3.4 27.6 1.0
CHD C:HEM338 3.4 26.8 1.0
CE C:MET110 3.4 27.8 1.0
CG C:MET110 3.5 28.0 1.0
CHA C:HEM338 3.5 28.4 1.0
CHC C:HEM338 3.5 26.7 1.0
CB C:MET110 4.1 28.8 1.0
ND1 C:HIS136 4.2 25.7 1.0
CG C:HIS136 4.2 23.2 1.0
C3A C:HEM338 4.2 29.0 1.0
C2D C:HEM338 4.3 30.1 1.0
C2A C:HEM338 4.3 27.8 1.0
C3D C:HEM338 4.3 29.8 1.0
C2B C:HEM338 4.3 27.4 1.0
C3B C:HEM338 4.3 26.1 1.0
C3C C:HEM338 4.3 22.1 1.0
C2C C:HEM338 4.3 22.5 1.0

Iron binding site 3 out of 5 in 2prc

Go back to Iron Binding Sites List in 2prc
Iron binding site 3 out of 5 in the Photosynthetic Reaction Center From Rhodopseudomonas Viridis (Ubiquinone-2 Complex)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Photosynthetic Reaction Center From Rhodopseudomonas Viridis (Ubiquinone-2 Complex) within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe339

b:15.8
occ:1.00
FE C:HEM339 0.0 15.8 1.0
NE2 C:HIS248 1.9 16.5 1.0
NA C:HEM339 2.0 17.6 1.0
ND C:HEM339 2.0 17.7 1.0
NB C:HEM339 2.0 15.9 1.0
NC C:HEM339 2.0 18.8 1.0
SD C:MET233 2.1 18.0 1.0
CD2 C:HIS248 2.9 16.0 1.0
CE1 C:HIS248 3.0 16.2 1.0
C4A C:HEM339 3.0 16.3 1.0
C4B C:HEM339 3.1 15.1 1.0
C1A C:HEM339 3.1 17.6 1.0
C1D C:HEM339 3.1 20.6 1.0
C1C C:HEM339 3.1 18.2 1.0
C1B C:HEM339 3.1 16.1 1.0
C4D C:HEM339 3.1 18.6 1.0
C4C C:HEM339 3.1 18.2 1.0
CE C:MET233 3.4 12.5 1.0
CHB C:HEM339 3.4 16.9 1.0
CHC C:HEM339 3.4 15.5 1.0
CHA C:HEM339 3.4 18.5 1.0
CG C:MET233 3.4 17.6 1.0
CHD C:HEM339 3.5 19.8 1.0
CG C:HIS248 4.0 13.4 1.0
ND1 C:HIS248 4.1 15.6 1.0
C3A C:HEM339 4.3 16.3 1.0
CB C:MET233 4.3 17.1 1.0
C2A C:HEM339 4.3 16.8 1.0
C3C C:HEM339 4.3 16.3 1.0
C3B C:HEM339 4.3 14.7 1.0
C2C C:HEM339 4.3 16.9 1.0
C2B C:HEM339 4.3 13.5 1.0
C3D C:HEM339 4.3 20.0 1.0
C2D C:HEM339 4.3 18.8 1.0

Iron binding site 4 out of 5 in 2prc

Go back to Iron Binding Sites List in 2prc
Iron binding site 4 out of 5 in the Photosynthetic Reaction Center From Rhodopseudomonas Viridis (Ubiquinone-2 Complex)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Photosynthetic Reaction Center From Rhodopseudomonas Viridis (Ubiquinone-2 Complex) within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe340

b:18.9
occ:1.00
FE C:HEM340 0.0 18.9 1.0
NE2 C:HIS309 1.9 16.9 1.0
NE2 C:HIS124 2.0 20.7 1.0
ND C:HEM340 2.0 20.5 1.0
NC C:HEM340 2.0 19.7 1.0
NB C:HEM340 2.0 19.1 1.0
NA C:HEM340 2.0 23.2 1.0
CE1 C:HIS124 2.9 22.4 1.0
CE1 C:HIS309 2.9 15.8 1.0
C4D C:HEM340 3.0 22.1 1.0
C1D C:HEM340 3.0 21.6 1.0
CD2 C:HIS309 3.0 15.6 1.0
C4C C:HEM340 3.0 20.4 1.0
C4B C:HEM340 3.1 19.3 1.0
C1A C:HEM340 3.1 24.0 1.0
C1C C:HEM340 3.1 18.3 1.0
C1B C:HEM340 3.1 21.1 1.0
CD2 C:HIS124 3.1 22.4 1.0
C4A C:HEM340 3.1 21.8 1.0
CHA C:HEM340 3.4 23.0 1.0
CHD C:HEM340 3.4 21.0 1.0
CHC C:HEM340 3.4 20.3 1.0
CHB C:HEM340 3.5 20.6 1.0
ND1 C:HIS309 4.0 16.0 1.0
ND1 C:HIS124 4.0 23.1 1.0
CG C:HIS309 4.1 16.6 1.0
CG C:HIS124 4.2 21.5 1.0
C3D C:HEM340 4.2 23.8 1.0
C2D C:HEM340 4.2 24.0 1.0
C3C C:HEM340 4.3 18.3 1.0
C2C C:HEM340 4.3 17.8 1.0
C3B C:HEM340 4.3 19.0 1.0
C2B C:HEM340 4.3 21.1 1.0
C2A C:HEM340 4.3 23.1 1.0
C3A C:HEM340 4.3 21.7 1.0

Iron binding site 5 out of 5 in 2prc

Go back to Iron Binding Sites List in 2prc
Iron binding site 5 out of 5 in the Photosynthetic Reaction Center From Rhodopseudomonas Viridis (Ubiquinone-2 Complex)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Photosynthetic Reaction Center From Rhodopseudomonas Viridis (Ubiquinone-2 Complex) within 5.0Å range:
probe atom residue distance (Å) B Occ
M:Fe500

b:18.3
occ:1.00
NE2 L:HIS190 2.0 17.1 1.0
OE2 M:GLU232 2.0 18.3 1.0
NE2 M:HIS264 2.0 10.3 1.0
NE2 M:HIS217 2.0 10.2 1.0
OE1 M:GLU232 2.2 23.1 1.0
NE2 L:HIS230 2.3 16.7 1.0
CD M:GLU232 2.4 19.0 1.0
CE1 L:HIS190 2.9 16.5 1.0
CE1 M:HIS264 2.9 10.8 1.0
CE1 M:HIS217 3.0 6.6 1.0
CD2 L:HIS190 3.0 16.8 1.0
CD2 M:HIS264 3.1 10.8 1.0
CD2 M:HIS217 3.1 11.2 1.0
CE1 L:HIS230 3.2 17.2 1.0
CD2 L:HIS230 3.4 14.7 1.0
CG M:GLU232 3.9 18.5 1.0
ND1 L:HIS190 4.1 11.8 1.0
ND1 M:HIS264 4.1 10.7 1.0
ND1 M:HIS217 4.1 8.3 1.0
CG L:HIS190 4.2 15.4 1.0
CG M:HIS264 4.2 10.5 1.0
CG M:HIS217 4.3 9.6 1.0
ND1 L:HIS230 4.4 13.4 1.0
CG L:HIS230 4.5 13.2 1.0
CG1 L:ILE194 4.6 15.8 1.0
O M:HOH834 4.6 20.0 1.0
CG1 M:ILE221 4.7 12.2 1.0
CD1 L:ILE194 4.7 17.3 1.0
CB M:GLU232 4.9 17.0 1.0

Reference:

C.R.Lancaster, H.Michel. The Coupling of Light-Induced Electron Transfer and Proton Uptake As Derived From Crystal Structures of Reaction Centres From Rhodopseudomonas Viridis Modified at the Binding Site of the Secondary Quinone, Qb. Structure V. 5 1339 1997.
ISSN: ISSN 0969-2126
PubMed: 9351808
DOI: 10.1016/S0969-2126(97)00285-2
Page generated: Sun Dec 13 14:51:21 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy