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Iron in PDB 6qph: Dunaliella Minimal Psi Complex

Enzymatic activity of Dunaliella Minimal Psi Complex

All present enzymatic activity of Dunaliella Minimal Psi Complex:
1.97.1.12;

Protein crystallography data

The structure of Dunaliella Minimal Psi Complex, PDB code: 6qph was solved by D.Klaiman, I.Caspy, N.Nelson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 48.95 / 3.40
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 158.881, 100.506, 191.040, 90.00, 91.73, 90.00
R / Rfree (%) 33.7 / 35.6

Other elements in 6qph:

The structure of Dunaliella Minimal Psi Complex also contains other interesting chemical elements:

Magnesium (Mg) 143 atoms
Arsenic (As) 6 atoms
Calcium (Ca) 1 atom

Iron Binding Sites:

Pages:

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

Binding sites:

The binding sites of Iron atom in the Dunaliella Minimal Psi Complex (pdb code 6qph). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 12 binding sites of Iron where determined in the Dunaliella Minimal Psi Complex, PDB code: 6qph:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Iron binding site 1 out of 12 in 6qph

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Iron binding site 1 out of 12 in the Dunaliella Minimal Psi Complex


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Dunaliella Minimal Psi Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe3001

b:0.3
occ:1.00
FE1 A:SF43001 0.0 0.3 1.0
SG A:CYS575 2.3 0.7 1.0
S4 A:SF43001 2.3 0.0 1.0
S3 A:SF43001 2.3 0.2 1.0
S2 A:SF43001 2.3 0.4 1.0
FE2 A:SF43001 2.7 0.5 1.0
FE4 A:SF43001 2.8 0.6 1.0
FE3 A:SF43001 2.8 0.4 1.0
CB A:CYS575 3.4 0.3 1.0
O A:THR583 3.9 0.1 1.0
S1 A:SF43001 3.9 0.3 1.0
CB B:PRO563 4.4 0.8 1.0
SG A:CYS584 4.6 0.7 1.0
CD B:PRO563 4.7 0.2 1.0
SG B:CYS569 4.7 0.7 1.0
CA A:CYS575 4.7 0.0 1.0
N B:PRO563 4.8 0.3 1.0
SG B:CYS560 4.8 0.3 1.0
CA B:PRO563 4.8 0.4 1.0
CG B:PRO563 4.8 0.5 1.0

Iron binding site 2 out of 12 in 6qph

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Iron binding site 2 out of 12 in the Dunaliella Minimal Psi Complex


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Dunaliella Minimal Psi Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe3001

b:0.5
occ:1.00
FE2 A:SF43001 0.0 0.5 1.0
SG B:CYS560 2.3 0.3 1.0
S4 A:SF43001 2.3 0.0 1.0
S3 A:SF43001 2.3 0.2 1.0
S1 A:SF43001 2.3 0.3 1.0
FE1 A:SF43001 2.7 0.3 1.0
FE4 A:SF43001 2.8 0.6 1.0
FE3 A:SF43001 2.8 0.4 1.0
CB B:CYS560 3.4 0.3 1.0
S2 A:SF43001 3.9 0.4 1.0
O B:THR568 4.2 0.8 1.0
SG B:CYS569 4.6 0.7 1.0
CB A:PRO578 4.7 0.3 1.0
CD1 B:ILE703 4.8 0.7 1.0
SG A:CYS584 4.8 0.7 1.0
CA B:CYS560 4.8 0.5 1.0
CD A:PRO578 4.8 0.9 1.0
SG A:CYS575 4.9 0.7 1.0

Iron binding site 3 out of 12 in 6qph

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Iron binding site 3 out of 12 in the Dunaliella Minimal Psi Complex


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Dunaliella Minimal Psi Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe3001

b:0.4
occ:1.00
FE3 A:SF43001 0.0 0.4 1.0
SG B:CYS569 2.2 0.7 1.0
S1 A:SF43001 2.3 0.3 1.0
S2 A:SF43001 2.3 0.4 1.0
S4 A:SF43001 2.3 0.0 1.0
FE4 A:SF43001 2.8 0.6 1.0
FE2 A:SF43001 2.8 0.5 1.0
FE1 A:SF43001 2.8 0.3 1.0
CB B:CYS569 3.6 0.3 1.0
S3 A:SF43001 3.9 0.2 1.0
CA B:CYS569 4.2 0.2 1.0
O B:THR568 4.3 0.8 1.0
CD1 A:ILE720 4.4 0.7 1.0
CZ3 B:TRP668 4.5 0.9 1.0
SG B:CYS560 4.6 0.3 1.0
SG A:CYS575 4.7 0.7 1.0
N B:CYS569 4.8 0.6 1.0
C B:THR568 4.8 0.4 1.0
SG A:CYS584 4.9 0.7 1.0

Iron binding site 4 out of 12 in 6qph

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Iron binding site 4 out of 12 in the Dunaliella Minimal Psi Complex


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Dunaliella Minimal Psi Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe3001

b:0.6
occ:1.00
FE4 A:SF43001 0.0 0.6 1.0
SG A:CYS584 2.3 0.7 1.0
S3 A:SF43001 2.3 0.2 1.0
S2 A:SF43001 2.3 0.4 1.0
S1 A:SF43001 2.3 0.3 1.0
FE1 A:SF43001 2.8 0.3 1.0
FE2 A:SF43001 2.8 0.5 1.0
FE3 A:SF43001 2.8 0.4 1.0
O A:THR583 3.7 0.1 1.0
CB A:CYS584 3.7 0.6 1.0
S4 A:SF43001 3.9 0.0 1.0
CD1 B:ILE703 4.1 0.7 1.0
CA A:CYS584 4.3 0.7 1.0
CE3 B:TRP668 4.4 0.6 1.0
C A:THR583 4.5 0.4 1.0
SG A:CYS575 4.6 0.7 1.0
CZ3 B:TRP668 4.6 0.9 1.0
CB A:CYS575 4.7 0.3 1.0
N A:CYS584 4.8 0.4 1.0
SG B:CYS560 4.8 0.3 1.0
SG B:CYS569 4.9 0.7 1.0

Iron binding site 5 out of 12 in 6qph

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Iron binding site 5 out of 12 in the Dunaliella Minimal Psi Complex


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Dunaliella Minimal Psi Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe3002

b:0.1
occ:1.00
FE1 C:SF43002 0.0 0.1 1.0
SG C:CYS21 2.3 1.0 1.0
S4 C:SF43002 2.3 0.1 1.0
S3 C:SF43002 2.3 0.9 1.0
S2 C:SF43002 2.3 0.0 1.0
FE3 C:SF43002 2.7 0.6 1.0
FE2 C:SF43002 2.7 0.2 1.0
FE4 C:SF43002 2.8 0.2 1.0
CB C:CYS21 3.6 0.9 1.0
S1 C:SF43002 3.9 1.0 1.0
CG2 C:VAL25 4.0 0.1 1.0
CD C:PRO22 4.2 0.2 1.0
CA C:CYS21 4.2 0.1 1.0
CB C:VAL25 4.3 0.6 1.0
N C:PRO22 4.6 0.9 1.0
SG C:CYS51 4.6 0.1 1.0
SG C:CYS54 4.7 0.7 1.0
N C:LEU23 4.7 0.7 1.0
CB C:CYS54 4.7 0.1 1.0
C C:CYS21 4.7 1.0 1.0
SG C:CYS48 4.8 0.8 1.0
CB C:LEU23 4.8 1.0 1.0

Iron binding site 6 out of 12 in 6qph

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Iron binding site 6 out of 12 in the Dunaliella Minimal Psi Complex


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of Dunaliella Minimal Psi Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe3002

b:0.2
occ:1.00
FE2 C:SF43002 0.0 0.2 1.0
SG C:CYS54 2.3 0.7 1.0
S4 C:SF43002 2.3 0.1 1.0
S3 C:SF43002 2.3 0.9 1.0
S1 C:SF43002 2.3 1.0 1.0
FE1 C:SF43002 2.7 0.1 1.0
FE4 C:SF43002 2.7 0.2 1.0
FE3 C:SF43002 2.7 0.6 1.0
CB C:CYS54 3.2 0.1 1.0
N C:CYS54 3.8 0.8 1.0
S2 C:SF43002 3.9 0.0 1.0
CA C:CYS54 4.1 0.7 1.0
CG2 C:VAL67 4.4 0.9 1.0
N C:ARG53 4.6 0.3 1.0
SG C:CYS21 4.6 1.0 1.0
N C:LYS52 4.7 0.7 1.0
SG C:CYS51 4.8 0.1 1.0
SG C:CYS48 4.8 0.8 1.0
CA C:LYS52 4.8 0.0 1.0
C C:ARG53 5.0 0.2 1.0

Iron binding site 7 out of 12 in 6qph

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Iron binding site 7 out of 12 in the Dunaliella Minimal Psi Complex


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 7 of Dunaliella Minimal Psi Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe3002

b:0.6
occ:1.00
FE3 C:SF43002 0.0 0.6 1.0
SG C:CYS51 2.3 0.1 1.0
S2 C:SF43002 2.3 0.0 1.0
S1 C:SF43002 2.3 1.0 1.0
S4 C:SF43002 2.3 0.1 1.0
FE1 C:SF43002 2.7 0.1 1.0
FE4 C:SF43002 2.7 0.2 1.0
FE2 C:SF43002 2.7 0.2 1.0
N C:CYS51 3.5 0.1 1.0
CB C:CYS51 3.7 0.4 1.0
N C:LYS52 3.8 0.7 1.0
S3 C:SF43002 3.9 0.9 1.0
CA C:CYS51 4.0 0.0 1.0
N C:ARG53 4.0 0.3 1.0
C C:CYS51 4.2 0.1 1.0
CD C:PRO22 4.2 0.2 1.0
C C:GLY50 4.5 0.6 1.0
N C:GLY50 4.5 0.1 1.0
CG C:PRO22 4.6 0.1 1.0
CA C:LYS52 4.6 0.0 1.0
CB C:ARG53 4.6 0.1 1.0
N C:CYS54 4.7 0.8 1.0
SG C:CYS21 4.7 1.0 1.0
CG1 C:VAL49 4.7 0.5 1.0
CA C:GLY50 4.8 0.9 1.0
SG C:CYS54 4.8 0.7 1.0
SG C:CYS48 4.8 0.8 1.0
CA C:ARG53 4.8 0.3 1.0
C C:LYS52 4.9 0.8 1.0

Iron binding site 8 out of 12 in 6qph

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Iron binding site 8 out of 12 in the Dunaliella Minimal Psi Complex


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 8 of Dunaliella Minimal Psi Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe3002

b:0.2
occ:1.00
FE4 C:SF43002 0.0 0.2 1.0
SG C:CYS48 2.3 0.8 1.0
S1 C:SF43002 2.3 1.0 1.0
S3 C:SF43002 2.3 0.9 1.0
S2 C:SF43002 2.3 0.0 1.0
FE3 C:SF43002 2.7 0.6 1.0
FE2 C:SF43002 2.7 0.2 1.0
FE1 C:SF43002 2.8 0.1 1.0
CB C:CYS48 3.7 0.7 1.0
S4 C:SF43002 3.9 0.1 1.0
N C:GLY50 4.0 0.1 1.0
CA C:CYS48 4.2 0.0 1.0
N C:VAL49 4.3 0.4 1.0
CA C:GLY50 4.4 0.9 1.0
C C:CYS48 4.6 0.3 1.0
CG2 C:VAL25 4.6 0.1 1.0
N C:CYS51 4.7 0.1 1.0
SG C:CYS51 4.9 0.1 1.0
SG C:CYS54 4.9 0.7 1.0
SG C:CYS21 4.9 1.0 1.0
CB C:VAL25 4.9 0.6 1.0
C C:GLY50 5.0 0.6 1.0
CG2 C:VAL67 5.0 0.9 1.0

Iron binding site 9 out of 12 in 6qph

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Iron binding site 9 out of 12 in the Dunaliella Minimal Psi Complex


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 9 of Dunaliella Minimal Psi Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe3003

b:0.5
occ:1.00
FE1 C:SF43003 0.0 0.5 1.0
SG C:CYS14 2.3 0.4 1.0
S2 C:SF43003 2.3 0.6 1.0
S4 C:SF43003 2.3 0.3 1.0
S3 C:SF43003 2.3 0.2 1.0
FE3 C:SF43003 2.7 1.0 1.0
FE2 C:SF43003 2.8 0.9 1.0
FE4 C:SF43003 2.8 0.7 1.0
N C:CYS14 3.7 0.8 1.0
CB C:CYS14 3.7 0.9 1.0
S1 C:SF43003 3.9 0.1 1.0
CD C:PRO59 4.1 0.0 1.0
CA C:CYS14 4.1 0.8 1.0
N C:THR15 4.3 0.5 1.0
SG C:CYS17 4.5 0.2 1.0
C C:CYS14 4.5 0.4 1.0
N C:GLN16 4.6 0.8 1.0
SG C:CYS58 4.6 0.3 1.0
N C:CYS17 4.7 0.9 1.0
N C:GLY13 4.7 0.1 1.0
C C:GLY13 4.7 1.0 1.0
CA C:CYS58 4.8 0.3 1.0
SG C:CYS11 4.8 0.4 1.0
CG C:PRO59 4.8 0.3 1.0
CA C:GLY13 4.9 0.9 1.0
CB C:CYS17 4.9 0.1 1.0
CG1 C:ILE12 5.0 0.3 1.0

Iron binding site 10 out of 12 in 6qph

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Iron binding site 10 out of 12 in the Dunaliella Minimal Psi Complex


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 10 of Dunaliella Minimal Psi Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe3003

b:0.9
occ:1.00
FE2 C:SF43003 0.0 0.9 1.0
SG C:CYS11 2.3 0.4 1.0
S4 C:SF43003 2.3 0.3 1.0
S1 C:SF43003 2.3 0.1 1.0
S3 C:SF43003 2.3 0.2 1.0
FE3 C:SF43003 2.7 1.0 1.0
FE1 C:SF43003 2.8 0.5 1.0
FE4 C:SF43003 2.8 0.7 1.0
CB C:CYS11 3.6 0.9 1.0
S2 C:SF43003 3.9 0.6 1.0
N C:GLY13 4.0 0.1 1.0
OG C:SER64 4.1 0.5 1.0
CA C:CYS11 4.1 0.2 1.0
N C:ILE12 4.2 0.2 1.0
CB C:SER64 4.3 0.4 1.0
CA C:GLY13 4.5 0.9 1.0
OG1 C:THR60 4.6 0.9 1.0
C C:CYS11 4.7 0.6 1.0
N C:CYS14 4.8 0.8 1.0
SG C:CYS58 4.8 0.3 1.0
SG C:CYS14 4.9 0.4 1.0
CB C:ALA40 4.9 0.5 1.0
SG C:CYS17 4.9 0.2 1.0

Reference:

A.Perez Boerema, D.Klaiman, I.Caspy, S.Netzer-El, A.Amunts, N.Nelson. Structure of A Minimal Photosystem I From A Green Alga To Be Published.
Page generated: Sun Dec 13 16:57:47 2020

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