Atomistry » Iron » PDB 7y9k-7yzq » 7yca
Atomistry »
  Iron »
    PDB 7y9k-7yzq »
      7yca »

Iron in PDB 7yca: Cryo-Em Structure of the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri

Enzymatic activity of Cryo-Em Structure of the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri

All present enzymatic activity of Cryo-Em Structure of the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri:
1.97.1.12;

Other elements in 7yca:

The structure of Cryo-Em Structure of the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri also contains other interesting chemical elements:

Magnesium (Mg) 315 atoms

Iron Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 12;

Binding sites:

The binding sites of Iron atom in the Cryo-Em Structure of the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri (pdb code 7yca). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 12 binding sites of Iron where determined in the Cryo-Em Structure of the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri, PDB code: 7yca:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Iron binding site 1 out of 12 in 7yca

Go back to Iron Binding Sites List in 7yca
Iron binding site 1 out of 12 in the Cryo-Em Structure of the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Cryo-Em Structure of the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe853

b:35.5
occ:1.00
 FE1 A:SF4853 0.0 35.5 1.0
S3 A:SF4853 2.2 7.5 1.0
S4 A:SF4853 2.2 27.6 1.0
S2 A:SF4853 2.2 15.3 1.0
SG B:CYS558 2.3 21.2 1.0
FE4 A:SF4853 3.1 35.6 1.0
FE3 A:SF4853 3.1 37.7 1.0
FE2 A:SF4853 3.1 39.6 1.0
CB B:CYS558 3.4 20.8 1.0
CD1 B:ILE701 3.8 19.1 1.0
S1 A:SF4853 3.8 24.0 1.0
N A:PRO578 4.1 16.1 1.0
SG A:CYS584 4.1 25.2 1.0
CB A:PRO578 4.2 26.1 1.0
CA A:PRO578 4.3 21.8 1.0
C A:GLY577 4.4 18.1 1.0
CD A:PRO578 4.4 22.2 1.0
SG A:CYS575 4.6 34.9 1.0
O A:GLY577 4.6 28.0 1.0
CA B:CYS558 4.7 19.4 1.0
CG A:PRO578 4.8 27.8 1.0
N B:CYS558 4.8 31.6 1.0
CA A:GLY577 5.0 18.7 1.0

Iron binding site 2 out of 12 in 7yca

Go back to Iron Binding Sites List in 7yca
Iron binding site 2 out of 12 in the Cryo-Em Structure of the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Cryo-Em Structure of the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe853

b:39.6
occ:1.00
 FE2 A:SF4853 0.0 39.6 1.0
S1 A:SF4853 2.2 24.0 1.0
S3 A:SF4853 2.2 7.5 1.0
S4 A:SF4853 2.2 27.6 1.0
SG A:CYS584 2.3 25.2 1.0
CB A:CYS584 2.8 26.5 1.0
FE3 A:SF4853 3.1 37.7 1.0
FE4 A:SF4853 3.1 35.6 1.0
FE1 A:SF4853 3.1 35.5 1.0
CA A:CYS584 3.4 15.7 1.0
CE3 B:TRP666 3.7 18.7 1.0
S2 A:SF4853 3.8 15.3 1.0
CZ3 B:TRP666 3.9 21.0 1.0
N A:CYS584 4.1 19.6 1.0
CB A:CYS575 4.1 29.0 1.0
NH2 A:ARG724 4.1 19.0 1.0
SG A:CYS575 4.4 34.9 1.0
SG B:CYS567 4.5 29.0 1.0
CD1 B:ILE701 4.6 19.1 1.0
C A:CYS584 4.7 21.1 1.0
CD2 B:TRP666 4.9 10.8 1.0
C A:THR583 4.9 22.3 1.0
N A:GLN585 5.0 11.7 1.0

Iron binding site 3 out of 12 in 7yca

Go back to Iron Binding Sites List in 7yca
Iron binding site 3 out of 12 in the Cryo-Em Structure of the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Cryo-Em Structure of the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe853

b:37.7
occ:1.00
 FE3 A:SF4853 0.0 37.7 1.0
SG B:CYS567 1.9 29.0 1.0
S2 A:SF4853 2.2 15.3 1.0
S4 A:SF4853 2.2 27.6 1.0
S1 A:SF4853 2.2 24.0 1.0
CB B:CYS567 2.9 19.9 1.0
FE2 A:SF4853 3.1 39.6 1.0
FE1 A:SF4853 3.1 35.5 1.0
FE4 A:SF4853 3.1 35.6 1.0
CA B:CYS567 3.4 19.6 1.0
S3 A:SF4853 3.8 7.5 1.0
N B:CYS567 3.8 22.0 1.0
CZ3 B:TRP666 4.1 21.0 1.0
CB B:CYS558 4.2 20.8 1.0
SG B:CYS558 4.3 21.2 1.0
CD1 A:ILE720 4.3 18.3 1.0
C B:THR566 4.6 20.2 1.0
C B:CYS567 4.8 23.3 1.0
CE3 B:TRP666 4.8 18.7 1.0
CH2 B:TRP666 4.9 20.5 1.0
CG2 A:ILE720 4.9 27.3 1.0
O B:THR566 5.0 25.6 1.0

Iron binding site 4 out of 12 in 7yca

Go back to Iron Binding Sites List in 7yca
Iron binding site 4 out of 12 in the Cryo-Em Structure of the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Cryo-Em Structure of the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe853

b:35.6
occ:1.00
 FE4 A:SF4853 0.0 35.6 1.0
SG A:CYS575 2.0 34.9 1.0
S1 A:SF4853 2.2 24.0 1.0
S2 A:SF4853 2.2 15.3 1.0
S3 A:SF4853 2.2 7.5 1.0
CB A:CYS575 3.0 29.0 1.0
FE1 A:SF4853 3.1 35.5 1.0
FE3 A:SF4853 3.1 37.7 1.0
FE2 A:SF4853 3.1 39.6 1.0
S4 A:SF4853 3.8 27.6 1.0
N B:PRO561 4.3 30.3 1.0
CD1 A:ILE720 4.3 18.3 1.0
CB B:PRO561 4.3 19.2 1.0
CA A:CYS575 4.3 22.9 1.0
SG B:CYS567 4.4 29.0 1.0
CD B:PRO561 4.4 29.4 1.0
CA B:PRO561 4.5 22.8 1.0
C B:GLY560 4.6 23.4 1.0
SG B:CYS558 4.6 21.2 1.0
N A:GLY577 4.6 21.6 1.0
N A:CYS575 4.6 26.2 1.0
CA A:GLY577 4.7 18.7 1.0
CG B:PRO561 4.7 24.1 1.0
O B:GLY560 4.9 24.6 1.0
C A:GLY577 4.9 18.1 1.0
C A:CYS575 4.9 24.4 1.0
C A:PRO574 5.0 18.7 1.0

Iron binding site 5 out of 12 in 7yca

Go back to Iron Binding Sites List in 7yca
Iron binding site 5 out of 12 in the Cryo-Em Structure of the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Cryo-Em Structure of the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe101

b:51.7
occ:1.00
 FE1 C:SF4101 0.0 51.7 1.0
S4 C:SF4101 2.2 37.4 1.0
S2 C:SF4101 2.2 33.2 1.0
S3 C:SF4101 2.2 36.3 1.0
SG C:CYS54 2.3 30.9 1.0
FE4 C:SF4101 3.1 41.5 1.0
FE3 C:SF4101 3.1 46.0 1.0
FE2 C:SF4101 3.1 48.4 1.0
CB C:CYS54 3.5 27.6 1.0
CG2 C:VAL67 3.6 30.7 1.0
S1 C:SF4101 3.8 30.1 1.0
N C:CYS54 3.9 24.9 1.0
N C:LYS52 4.1 22.2 1.0
CA C:LYS52 4.2 23.7 1.0
N C:ARG53 4.3 29.9 1.0
CA C:CYS54 4.3 25.2 1.0
C C:LYS52 4.5 26.8 1.0
CD1 C:LEU26 4.7 36.2 1.0
CB C:VAL67 4.9 24.0 1.0
SG C:CYS51 4.9 29.4 1.0
SG C:CYS48 5.0 44.4 1.0
C C:ARG53 5.0 28.7 1.0

Iron binding site 6 out of 12 in 7yca

Go back to Iron Binding Sites List in 7yca
Iron binding site 6 out of 12 in the Cryo-Em Structure of the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of Cryo-Em Structure of the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe101

b:48.4
occ:1.00
 FE2 C:SF4101 0.0 48.4 1.0
S3 C:SF4101 2.2 36.3 1.0
S4 C:SF4101 2.2 37.4 1.0
S1 C:SF4101 2.2 30.1 1.0
SG C:CYS51 2.3 29.4 1.0
FE3 C:SF4101 3.1 46.0 1.0
FE4 C:SF4101 3.1 41.5 1.0
FE1 C:SF4101 3.1 51.7 1.0
N C:CYS51 3.2 25.6 1.0
CB C:CYS51 3.5 20.7 1.0
N C:LYS52 3.5 22.2 1.0
CA C:CYS51 3.7 22.3 1.0
S2 C:SF4101 3.8 33.2 1.0
CD C:PRO22 3.9 33.3 1.0
C C:CYS51 3.9 21.4 1.0
CG2 C:VAL49 4.0 29.3 1.0
N C:GLY50 4.1 23.9 1.0
C C:GLY50 4.1 26.0 1.0
N C:ARG53 4.2 29.9 1.0
CG C:PRO22 4.4 28.8 1.0
CA C:GLY50 4.5 19.4 1.0
CA C:LYS52 4.5 23.7 1.0
N C:VAL49 4.9 23.6 1.0
OG1 C:THR23 4.9 38.9 1.0
C C:LYS52 4.9 26.8 1.0
CB C:ARG53 4.9 23.6 1.0
O C:CYS51 5.0 33.9 1.0
SG C:CYS48 5.0 44.4 1.0

Iron binding site 7 out of 12 in 7yca

Go back to Iron Binding Sites List in 7yca
Iron binding site 7 out of 12 in the Cryo-Em Structure of the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 7 of Cryo-Em Structure of the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe101

b:46.0
occ:1.00
 FE3 C:SF4101 0.0 46.0 1.0
S2 C:SF4101 2.2 33.2 1.0
S1 C:SF4101 2.2 30.1 1.0
S4 C:SF4101 2.2 37.4 1.0
SG C:CYS21 2.4 36.2 1.0
CB C:CYS21 3.0 31.2 1.0
FE2 C:SF4101 3.1 48.4 1.0
FE4 C:SF4101 3.1 41.5 1.0
FE1 C:SF4101 3.1 51.7 1.0
CA C:CYS21 3.5 30.1 1.0
S3 C:SF4101 3.8 36.3 1.0
OG1 C:THR23 3.9 38.9 1.0
CD C:PRO22 4.0 33.3 1.0
CB C:VAL25 4.1 32.1 1.0
CG2 C:VAL25 4.2 36.5 1.0
C C:CYS21 4.3 31.2 1.0
N C:PRO22 4.3 31.8 1.0
CD1 C:LEU26 4.7 36.2 1.0
N C:CYS21 4.7 34.5 1.0
N C:VAL25 4.8 37.3 1.0
N C:THR23 4.8 35.3 1.0
CG C:LEU26 4.8 33.4 1.0
SG C:CYS51 4.9 29.4 1.0
CG1 C:VAL25 4.9 37.4 1.0
SG C:CYS54 5.0 30.9 1.0

Iron binding site 8 out of 12 in 7yca

Go back to Iron Binding Sites List in 7yca
Iron binding site 8 out of 12 in the Cryo-Em Structure of the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 8 of Cryo-Em Structure of the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe101

b:41.5
occ:1.00
 FE4 C:SF4101 0.0 41.5 1.0
S3 C:SF4101 2.2 36.3 1.0
S2 C:SF4101 2.2 33.2 1.0
S1 C:SF4101 2.2 30.1 1.0
SG C:CYS48 2.3 44.4 1.0
CB C:CYS48 3.1 29.4 1.0
FE1 C:SF4101 3.1 51.7 1.0
FE3 C:SF4101 3.1 46.0 1.0
FE2 C:SF4101 3.1 48.4 1.0
CA C:CYS48 3.4 26.6 1.0
S4 C:SF4101 3.8 37.4 1.0
N C:GLY50 3.9 23.9 1.0
C C:CYS48 4.0 30.0 1.0
N C:VAL49 4.0 23.6 1.0
CG2 C:VAL5 4.2 35.7 1.0
CA C:GLY50 4.4 19.4 1.0
CG2 C:VAL25 4.4 36.5 1.0
CB C:VAL25 4.6 32.1 1.0
CG2 C:VAL67 4.6 30.7 1.0
CG1 C:VAL25 4.6 37.4 1.0
N C:CYS48 4.7 33.0 1.0
OG1 C:THR23 4.8 38.9 1.0
CG1 C:VAL67 4.8 29.3 1.0
N C:CYS51 4.8 25.6 1.0
O C:CYS48 4.9 42.2 1.0
C C:VAL49 4.9 28.3 1.0
C C:GLY50 5.0 26.0 1.0

Iron binding site 9 out of 12 in 7yca

Go back to Iron Binding Sites List in 7yca
Iron binding site 9 out of 12 in the Cryo-Em Structure of the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 9 of Cryo-Em Structure of the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe102

b:53.4
occ:1.00
 FE1 C:SF4102 0.0 53.4 1.0
S2 C:SF4102 2.2 26.2 1.0
S3 C:SF4102 2.2 38.1 1.0
S4 C:SF4102 2.2 42.5 1.0
SG C:CYS58 2.4 39.6 1.0
CB C:CYS58 3.1 31.0 1.0
FE2 C:SF4102 3.1 47.4 1.0
FE4 C:SF4102 3.1 56.4 1.0
FE3 C:SF4102 3.1 54.1 1.0
CA C:CYS58 3.5 31.7 1.0
S1 C:SF4102 3.8 39.1 1.0
CD C:PRO59 4.0 33.2 1.0
CB C:SER64 4.1 36.6 1.0
CG2 C:THR60 4.2 37.5 1.0
CG1 C:VAL65 4.3 31.9 1.0
C C:CYS58 4.3 30.8 1.0
N C:PRO59 4.4 23.4 1.0
SG C:CYS14 4.5 36.8 1.0
OG C:SER64 4.6 43.1 1.0
N C:SER64 4.7 35.5 1.0
N C:VAL65 4.7 27.7 1.0
N C:CYS58 4.7 29.1 1.0
CB C:CYS17 4.8 29.2 1.0
CA C:SER64 4.8 33.1 1.0
CB C:VAL65 5.0 22.4 1.0
C C:SER64 5.0 33.4 1.0

Iron binding site 10 out of 12 in 7yca

Go back to Iron Binding Sites List in 7yca
Iron binding site 10 out of 12 in the Cryo-Em Structure of the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 10 of Cryo-Em Structure of the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe102

b:47.4
occ:1.00
 FE2 C:SF4102 0.0 47.4 1.0
S4 C:SF4102 2.2 42.5 1.0
S1 C:SF4102 2.2 39.1 1.0
S3 C:SF4102 2.2 38.1 1.0
SG C:CYS17 2.3 46.1 1.0
CB C:CYS17 2.7 29.2 1.0
FE4 C:SF4102 3.1 56.4 1.0
FE1 C:SF4102 3.1 53.4 1.0
FE3 C:SF4102 3.1 54.1 1.0
N C:CYS17 3.5 30.5 1.0
CA C:CYS17 3.7 27.4 1.0
S2 C:SF4102 3.8 26.2 1.0
CB C:ALA40 4.2 35.7 1.0
N C:GLN16 4.5 35.6 1.0
SG C:CYS11 4.6 44.1 1.0
N C:VAL18 4.6 33.5 1.0
C C:CYS17 4.7 32.1 1.0
C C:GLN16 4.7 39.3 1.0
CG1 C:VAL65 4.7 31.9 1.0
SG C:CYS14 4.7 36.8 1.0
N C:THR15 4.8 35.6 1.0
C C:THR15 4.8 34.6 1.0
CA C:THR15 4.9 37.0 1.0

Reference:

A.Ishii, J.Shan, X.Sheng, E.Kim, A.Watanabe, M.Yokono, C.Noda, C.Song, K.Murata, Z.Liu, J.Minagawa. The Photosystem I Supercomplex From A Primordial Green Alga Ostreococcus Tauri Harbors Three Light-Harvesting Complex Trimers. Elife V. 12 2023.
ISSN: ESSN 2050-084X
PubMed: 36951548
DOI: 10.7554/ELIFE.84488
Page generated: Fri Aug 9 12:15:52 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy