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Iron in PDB 5cxm: Crystal Structure of the Cyanobacterial Plasma Membrane Rieske Protein PETC3 From Synechocystis Pcc 6803

Protein crystallography data

The structure of Crystal Structure of the Cyanobacterial Plasma Membrane Rieske Protein PETC3 From Synechocystis Pcc 6803, PDB code: 5cxm was solved by S.Veit, K.Takeda, K.Miki, M.Roegner, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 26.53 / 1.70
Space group P 1
Cell size a, b, c (Å), α, β, γ (°) 21.747, 55.011, 80.709, 80.44, 89.87, 84.11
R / Rfree (%) 18.5 / 21.6

Other elements in 5cxm:

The structure of Crystal Structure of the Cyanobacterial Plasma Membrane Rieske Protein PETC3 From Synechocystis Pcc 6803 also contains other interesting chemical elements:

Nickel (Ni) 4 atoms

Iron Binding Sites:

The binding sites of Iron atom in the Crystal Structure of the Cyanobacterial Plasma Membrane Rieske Protein PETC3 From Synechocystis Pcc 6803 (pdb code 5cxm). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 8 binding sites of Iron where determined in the Crystal Structure of the Cyanobacterial Plasma Membrane Rieske Protein PETC3 From Synechocystis Pcc 6803, PDB code: 5cxm:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Iron binding site 1 out of 8 in 5cxm

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Iron binding site 1 out of 8 in the Crystal Structure of the Cyanobacterial Plasma Membrane Rieske Protein PETC3 From Synechocystis Pcc 6803


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Crystal Structure of the Cyanobacterial Plasma Membrane Rieske Protein PETC3 From Synechocystis Pcc 6803 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe201

b:11.6
occ:1.00
FE1 A:FES201 0.0 11.6 1.0
S2 A:FES201 2.2 13.6 1.0
S1 A:FES201 2.2 12.2 1.0
SG A:CYS77 2.3 11.2 1.0
SG A:CYS95 2.3 13.8 1.0
FE2 A:FES201 2.7 13.7 1.0
CB A:CYS77 3.0 11.3 1.0
CB A:CYS95 3.1 10.1 1.0
CB A:HIS79 4.0 13.2 1.0
ND1 A:HIS79 4.3 13.0 1.0
ND1 A:HIS98 4.4 13.1 1.0
CB A:ALA100 4.4 11.4 1.0
N A:HIS98 4.4 13.4 1.0
CA A:CYS77 4.5 9.6 1.0
N A:ASN80 4.5 16.5 1.0
CB A:CYS82 4.5 18.3 1.0
CA A:CYS95 4.6 11.9 1.0
CB A:CYS97 4.6 17.6 1.0
CG A:HIS79 4.7 13.3 1.0
N A:HIS79 4.9 11.6 1.0
N A:ALA100 4.9 9.3 1.0
N A:CYS82 4.9 14.8 1.0
CA A:HIS79 5.0 14.0 1.0
C A:CYS77 5.0 9.8 1.0

Iron binding site 2 out of 8 in 5cxm

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Iron binding site 2 out of 8 in the Crystal Structure of the Cyanobacterial Plasma Membrane Rieske Protein PETC3 From Synechocystis Pcc 6803


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Crystal Structure of the Cyanobacterial Plasma Membrane Rieske Protein PETC3 From Synechocystis Pcc 6803 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe201

b:13.7
occ:1.00
FE2 A:FES201 0.0 13.7 1.0
ND1 A:HIS79 2.1 13.0 1.0
ND1 A:HIS98 2.1 13.1 1.0
S1 A:FES201 2.2 12.2 1.0
S2 A:FES201 2.3 13.6 1.0
FE1 A:FES201 2.7 11.6 1.0
CE1 A:HIS79 3.0 16.4 1.0
CE1 A:HIS98 3.1 14.4 1.0
CG A:HIS79 3.1 13.3 1.0
CG A:HIS98 3.1 13.8 1.0
CB A:HIS79 3.4 13.2 1.0
CB A:HIS98 3.5 14.6 1.0
N A:ASN80 3.9 16.5 1.0
N A:HIS98 4.0 13.4 1.0
CB A:ASN80 4.1 22.1 1.0
NE2 A:HIS79 4.1 16.0 1.0
CD2 A:HIS79 4.2 16.2 1.0
NE2 A:HIS98 4.2 14.5 1.0
CD2 A:HIS98 4.3 14.3 1.0
CA A:HIS98 4.3 13.0 1.0
CG A:PRO112 4.3 15.6 1.0
SG A:CYS95 4.4 13.8 1.0
SG A:CYS77 4.4 11.2 1.0
CB A:CYS97 4.5 17.6 1.0
CA A:ASN80 4.6 19.3 1.0
CA A:HIS79 4.6 14.0 1.0
C A:HIS79 4.6 11.5 1.0
CG A:ASN80 4.6 30.1 1.0
ND2 A:ASN80 4.7 32.6 1.0
C A:CYS97 4.8 14.1 1.0

Iron binding site 3 out of 8 in 5cxm

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Iron binding site 3 out of 8 in the Crystal Structure of the Cyanobacterial Plasma Membrane Rieske Protein PETC3 From Synechocystis Pcc 6803


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Crystal Structure of the Cyanobacterial Plasma Membrane Rieske Protein PETC3 From Synechocystis Pcc 6803 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe201

b:11.0
occ:1.00
FE1 B:FES201 0.0 11.0 1.0
S1 B:FES201 2.2 11.6 1.0
SG B:CYS77 2.3 9.1 1.0
S2 B:FES201 2.3 11.6 1.0
SG B:CYS95 2.3 11.4 1.0
FE2 B:FES201 2.7 12.2 1.0
CB B:CYS77 3.0 11.4 1.0
CB B:CYS95 3.1 10.7 1.0
CB B:HIS79 4.1 12.2 1.0
ND1 B:HIS79 4.3 12.7 1.0
ND1 B:HIS98 4.3 14.1 1.0
N B:HIS98 4.5 13.1 1.0
CA B:CYS77 4.5 7.7 1.0
CB B:ALA100 4.5 11.6 1.0
N B:ASN80 4.5 14.5 1.0
CB B:CYS82 4.5 16.9 1.0
CB B:CYS97 4.6 12.6 1.0
CA B:CYS95 4.6 9.4 1.0
CG B:HIS79 4.7 11.0 1.0
N B:CYS82 4.9 12.7 1.0
N B:HIS79 4.9 11.4 1.0
N B:ALA100 5.0 11.6 1.0
C B:CYS77 5.0 10.4 1.0
CB B:HIS98 5.0 9.6 1.0

Iron binding site 4 out of 8 in 5cxm

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Iron binding site 4 out of 8 in the Crystal Structure of the Cyanobacterial Plasma Membrane Rieske Protein PETC3 From Synechocystis Pcc 6803


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Crystal Structure of the Cyanobacterial Plasma Membrane Rieske Protein PETC3 From Synechocystis Pcc 6803 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe201

b:12.2
occ:1.00
FE2 B:FES201 0.0 12.2 1.0
ND1 B:HIS79 2.1 12.7 1.0
ND1 B:HIS98 2.1 14.1 1.0
S2 B:FES201 2.2 11.6 1.0
S1 B:FES201 2.2 11.6 1.0
FE1 B:FES201 2.7 11.0 1.0
CE1 B:HIS79 3.0 17.0 1.0
CG B:HIS98 3.0 12.1 1.0
CE1 B:HIS98 3.1 15.0 1.0
CG B:HIS79 3.1 11.0 1.0
CB B:HIS98 3.3 9.6 1.0
CB B:HIS79 3.4 12.2 1.0
N B:HIS98 4.0 13.1 1.0
N B:ASN80 4.0 14.5 1.0
CB B:ASN80 4.1 22.0 1.0
NE2 B:HIS79 4.2 14.6 1.0
NE2 B:HIS98 4.2 13.8 1.0
CD2 B:HIS98 4.2 11.1 1.0
CD2 B:HIS79 4.2 15.3 1.0
CA B:HIS98 4.2 9.9 1.0
CG B:PRO112 4.3 10.9 1.0
CB B:CYS97 4.4 12.6 1.0
SG B:CYS95 4.4 11.4 1.0
SG B:CYS77 4.4 9.1 1.0
ND2 B:ASN80 4.5 34.0 1.0
CG B:ASN80 4.6 28.3 1.0
CA B:ASN80 4.6 17.6 1.0
CA B:HIS79 4.7 11.9 1.0
C B:HIS79 4.7 12.0 1.0
C B:CYS97 4.7 12.9 1.0

Iron binding site 5 out of 8 in 5cxm

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Iron binding site 5 out of 8 in the Crystal Structure of the Cyanobacterial Plasma Membrane Rieske Protein PETC3 From Synechocystis Pcc 6803


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Crystal Structure of the Cyanobacterial Plasma Membrane Rieske Protein PETC3 From Synechocystis Pcc 6803 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe201

b:11.8
occ:1.00
FE1 C:FES201 0.0 11.8 1.0
S1 C:FES201 2.2 12.1 1.0
S2 C:FES201 2.3 14.5 1.0
SG C:CYS77 2.3 9.9 1.0
SG C:CYS95 2.3 12.6 1.0
FE2 C:FES201 2.7 13.5 1.0
CB C:CYS77 3.0 8.8 1.0
CB C:CYS95 3.1 10.8 1.0
CB C:HIS79 4.1 13.4 1.0
ND1 C:HIS79 4.2 13.0 1.0
ND1 C:HIS98 4.4 14.8 1.0
N C:HIS98 4.4 13.6 1.0
CB C:ALA100 4.5 10.8 1.0
CA C:CYS77 4.5 8.3 1.0
CA C:CYS95 4.5 10.2 1.0
N C:ASN80 4.6 16.3 1.0
CB C:CYS82 4.6 18.9 1.0
CB C:CYS97 4.6 14.6 1.0
CG C:HIS79 4.7 15.9 1.0
N C:CYS82 4.9 17.5 1.0
N C:ALA100 4.9 10.6 1.0
N C:HIS79 4.9 12.9 1.0
CB C:HIS98 5.0 14.7 1.0
C C:CYS77 5.0 9.7 1.0

Iron binding site 6 out of 8 in 5cxm

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Iron binding site 6 out of 8 in the Crystal Structure of the Cyanobacterial Plasma Membrane Rieske Protein PETC3 From Synechocystis Pcc 6803


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of Crystal Structure of the Cyanobacterial Plasma Membrane Rieske Protein PETC3 From Synechocystis Pcc 6803 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe201

b:13.5
occ:1.00
FE2 C:FES201 0.0 13.5 1.0
ND1 C:HIS79 2.0 13.0 1.0
ND1 C:HIS98 2.1 14.8 1.0
S2 C:FES201 2.2 14.5 1.0
S1 C:FES201 2.2 12.1 1.0
FE1 C:FES201 2.7 11.8 1.0
CE1 C:HIS79 2.9 20.3 1.0
CG C:HIS98 3.1 15.3 1.0
CG C:HIS79 3.1 15.9 1.0
CE1 C:HIS98 3.1 17.3 1.0
CB C:HIS98 3.4 14.7 1.0
CB C:HIS79 3.5 13.4 1.0
N C:ASN80 3.9 16.3 1.0
N C:HIS98 3.9 13.6 1.0
NE2 C:HIS79 4.1 18.5 1.0
CB C:ASN80 4.1 22.2 1.0
CD2 C:HIS79 4.2 17.9 1.0
NE2 C:HIS98 4.2 15.4 1.0
CD2 C:HIS98 4.2 16.1 1.0
CA C:HIS98 4.2 13.5 1.0
CG C:PRO112 4.3 11.3 1.0
SG C:CYS77 4.4 9.9 1.0
SG C:CYS95 4.4 12.6 1.0
CB C:CYS97 4.4 14.6 1.0
CA C:ASN80 4.6 19.3 1.0
CG C:ASN80 4.6 27.1 1.0
CA C:HIS79 4.7 13.2 1.0
C C:HIS79 4.7 12.3 1.0
ND2 C:ASN80 4.7 30.6 1.0
C C:CYS97 4.7 15.7 1.0

Iron binding site 7 out of 8 in 5cxm

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Iron binding site 7 out of 8 in the Crystal Structure of the Cyanobacterial Plasma Membrane Rieske Protein PETC3 From Synechocystis Pcc 6803


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 7 of Crystal Structure of the Cyanobacterial Plasma Membrane Rieske Protein PETC3 From Synechocystis Pcc 6803 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Fe201

b:13.3
occ:1.00
FE1 D:FES201 0.0 13.3 1.0
S1 D:FES201 2.2 15.1 1.0
S2 D:FES201 2.3 15.3 1.0
SG D:CYS77 2.3 11.5 1.0
SG D:CYS95 2.3 13.6 1.0
FE2 D:FES201 2.7 14.4 1.0
CB D:CYS77 3.0 13.2 1.0
CB D:CYS95 3.1 11.8 1.0
CB D:HIS79 4.1 16.2 1.0
ND1 D:HIS79 4.2 15.2 1.0
ND1 D:HIS98 4.4 14.8 1.0
CB D:ALA100 4.4 12.5 1.0
N D:HIS98 4.4 14.9 1.0
CA D:CYS77 4.5 10.8 1.0
CB D:CYS82 4.5 21.2 1.0
N D:ASN80 4.5 16.6 1.0
CA D:CYS95 4.6 12.0 1.0
CB D:CYS97 4.6 16.2 1.0
CG D:HIS79 4.6 16.7 1.0
N D:CYS82 4.8 16.6 1.0
N D:HIS79 4.9 12.3 1.0
N D:ALA100 4.9 11.3 1.0
CB D:HIS98 5.0 12.6 1.0
O D:CYS82 5.0 17.5 1.0

Iron binding site 8 out of 8 in 5cxm

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Iron binding site 8 out of 8 in the Crystal Structure of the Cyanobacterial Plasma Membrane Rieske Protein PETC3 From Synechocystis Pcc 6803


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 8 of Crystal Structure of the Cyanobacterial Plasma Membrane Rieske Protein PETC3 From Synechocystis Pcc 6803 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Fe201

b:14.4
occ:1.00
FE2 D:FES201 0.0 14.4 1.0
ND1 D:HIS79 2.0 15.2 1.0
ND1 D:HIS98 2.1 14.8 1.0
S2 D:FES201 2.2 15.3 1.0
S1 D:FES201 2.3 15.1 1.0
FE1 D:FES201 2.7 13.3 1.0
CE1 D:HIS79 2.9 18.2 1.0
CG D:HIS98 3.0 13.9 1.0
CE1 D:HIS98 3.1 17.1 1.0
CG D:HIS79 3.1 16.7 1.0
CB D:HIS98 3.3 12.6 1.0
CB D:HIS79 3.5 16.2 1.0
CB D:ASN80 3.9 23.2 1.0
N D:ASN80 4.0 16.6 1.0
N D:HIS98 4.0 14.9 1.0
NE2 D:HIS79 4.0 19.6 1.0
CD2 D:HIS79 4.2 17.9 1.0
NE2 D:HIS98 4.2 15.1 1.0
CD2 D:HIS98 4.2 14.5 1.0
CA D:HIS98 4.2 15.7 1.0
CG D:PRO112 4.3 16.5 1.0
SG D:CYS95 4.4 13.6 1.0
CB D:CYS97 4.4 16.2 1.0
SG D:CYS77 4.4 11.5 1.0
CA D:ASN80 4.6 19.2 1.0
CA D:HIS79 4.7 15.0 1.0
C D:HIS79 4.7 14.7 1.0
C D:CYS97 4.8 17.2 1.0
C D:HIS98 5.0 16.5 1.0

Reference:

S.Veit, K.Takeda, Y.Tsunoyama, F.Baymann, R.Nevo, Z.Reich, M.Rogner, K.Miki, S.Rexroth. Structural and Functional Characterisation of the Cyanobacterial PETC3 Rieske Protein Family. Biochim. Biophys. Acta V.1857 1879 2016.
ISSN: ISSN 0006-3002
PubMed: 27663073
DOI: 10.1016/J.BBABIO.2016.09.007
Page generated: Sun Dec 13 15:58:33 2020

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