Iron in PDB 6l7o: Cryo-Em Structure of Cyanobacteria Fd-Ndh-1L Complex

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 14;

Binding sites:

The binding sites of Iron atom in the Cryo-Em Structure of Cyanobacteria Fd-Ndh-1L Complex (pdb code 6l7o). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 14 binding sites of Iron where determined in the Cryo-Em Structure of Cyanobacteria Fd-Ndh-1L Complex, PDB code: 6l7o:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Iron binding site 1 out of 14 in the Cryo-Em Structure of Cyanobacteria Fd-Ndh-1L Complex


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 Cyanobacteria Fd-Ndh-1L Complex within 5.0Å range: probe atom residue distance (Å) B Occ I:Fe201 b:79.2 occ:1.00 FE1 I:SF4201 0.0 79.2 1.0 S4 I:SF4201 2.3 79.2 1.0 S2 I:SF4201 2.3 79.2 1.0 S3 I:SF4201 2.3 79.2 1.0 FE3 I:SF4201 2.6 79.2 1.0 FE4 I:SF4201 2.7 79.2 1.0 FE2 I:SF4201 2.7 79.2 1.0 SG I:CYS106 3.2 51.3 1.0 S1 I:SF4201 3.8 79.2 1.0 N I:CYS106 4.4 51.3 1.0 N I:ASN108 4.6 50.7 1.0 SG I:CYS73 4.6 48.7 1.0 CB I:ASN108 4.7 50.7 1.0 N I:ALA107 4.7 53.8 1.0 CB I:CYS106 4.7 51.3 1.0 N I:PHE105 4.8 43.4 1.0 SG I:CYS109 4.8 50.4 1.0 CD I:PRO74 5.0 43.9 1.0 N I:CYS109 5.0 50.4 1.0 CB I:ILE104 5.0 40.6 1.0

Iron binding site 2 out of 14 in the Cryo-Em Structure of Cyanobacteria Fd-Ndh-1L Complex


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 Cyanobacteria Fd-Ndh-1L Complex within 5.0Å range: probe atom residue distance (Å) B Occ I:Fe201 b:79.2 occ:1.00 FE2 I:SF4201 0.0 79.2 1.0 S4 I:SF4201 2.3 79.2 1.0 S3 I:SF4201 2.3 79.2 1.0 S1 I:SF4201 2.3 79.2 1.0 FE1 I:SF4201 2.7 79.2 1.0 FE3 I:SF4201 2.8 79.2 1.0 FE4 I:SF4201 2.8 79.2 1.0 SG I:CYS103 2.8 39.3 1.0 S2 I:SF4201 4.0 79.2 1.0 CB I:CYS103 4.1 39.3 1.0 N I:PHE105 4.1 43.4 1.0 N I:ILE104 4.2 40.6 1.0 CA I:CYS103 4.4 39.3 1.0 CD1 I:LEU77 4.5 42.9 1.0 CD1 I:ILE56 4.5 54.9 1.0 CA I:PHE105 4.7 43.4 1.0 C I:CYS103 4.8 39.3 1.0

Iron binding site 3 out of 14 in the Cryo-Em Structure of Cyanobacteria Fd-Ndh-1L Complex


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 Cyanobacteria Fd-Ndh-1L Complex within 5.0Å range: probe atom residue distance (Å) B Occ I:Fe201 b:79.2 occ:1.00 FE3 I:SF4201 0.0 79.2 1.0 S2 I:SF4201 2.3 79.2 1.0 S4 I:SF4201 2.3 79.2 1.0 S1 I:SF4201 2.3 79.2 1.0 SG I:CYS109 2.4 50.4 1.0 FE1 I:SF4201 2.6 79.2 1.0 FE2 I:SF4201 2.8 79.2 1.0 FE4 I:SF4201 2.8 79.2 1.0 CB I:CYS109 3.6 50.4 1.0 S3 I:SF4201 3.9 79.2 1.0 N I:CYS109 4.1 50.4 1.0 CA I:CYS109 4.5 50.4 1.0 N I:ASN108 4.8 50.7 1.0 CG1 I:ILE56 4.9 54.9 1.0

Iron binding site 4 out of 14 in the Cryo-Em Structure of Cyanobacteria Fd-Ndh-1L Complex


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 Cyanobacteria Fd-Ndh-1L Complex within 5.0Å range: probe atom residue distance (Å) B Occ I:Fe201 b:79.2 occ:1.00 FE4 I:SF4201 0.0 79.2 1.0 S3 I:SF4201 2.3 79.2 1.0 S1 I:SF4201 2.3 79.2 1.0 S2 I:SF4201 2.3 79.2 1.0 SG I:CYS73 2.5 48.7 1.0 FE1 I:SF4201 2.7 79.2 1.0 FE3 I:SF4201 2.8 79.2 1.0 FE2 I:SF4201 2.8 79.2 1.0 CB I:CYS73 3.4 48.7 1.0 S4 I:SF4201 3.9 79.2 1.0 CG I:LEU77 4.3 42.9 1.0 CD1 I:LEU77 4.3 42.9 1.0 CA I:CYS73 4.3 48.7 1.0 CB I:LEU77 4.6 42.9 1.0 SG I:CYS109 4.7 50.4 1.0 CD I:PRO74 4.8 43.9 1.0 CD I:PRO78 4.8 44.9 1.0

Iron binding site 5 out of 14 in the Cryo-Em Structure of Cyanobacteria Fd-Ndh-1L Complex


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 Cyanobacteria Fd-Ndh-1L Complex within 5.0Å range: probe atom residue distance (Å) B Occ I:Fe202 b:86.3 occ:1.00 FE1 I:SF4202 0.0 86.3 1.0 S3 I:SF4202 2.3 86.3 1.0 S2 I:SF4202 2.3 86.3 1.0 S4 I:SF4202 2.3 86.3 1.0 FE4 I:SF4202 2.6 86.3 1.0 FE3 I:SF4202 2.7 86.3 1.0 FE2 I:SF4202 2.7 86.3 1.0 SG I:CYS113 3.2 63.1 1.0 CB I:CYS117 3.4 65.3 1.0 S1 I:SF4202 3.8 86.3 1.0 SG I:CYS66 4.2 61.8 1.0 SG I:CYS117 4.2 65.3 1.0 OG1 I:THR115 4.7 64.5 1.0 CA I:CYS117 4.7 65.3 1.0 CB I:CYS113 4.8 63.1 1.0 N I:CYS117 4.8 65.3 1.0

Iron binding site 6 out of 14 in the Cryo-Em Structure of Cyanobacteria Fd-Ndh-1L Complex


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 Cyanobacteria Fd-Ndh-1L Complex within 5.0Å range: probe atom residue distance (Å) B Occ I:Fe202 b:86.3 occ:1.00 FE2 I:SF4202 0.0 86.3 1.0 S4 I:SF4202 2.3 86.3 1.0 S3 I:SF4202 2.3 86.3 1.0 S1 I:SF4202 2.3 86.3 1.0 FE1 I:SF4202 2.7 86.3 1.0 FE3 I:SF4202 2.8 86.3 1.0 FE4 I:SF4202 2.8 86.3 1.0 SG I:CYS69 3.0 49.0 1.0 S2 I:SF4202 4.0 86.3 1.0 CB I:CYS69 4.2 49.0 1.0 N I:CYS69 4.5 49.0 1.0 OH I:TYR96 4.5 57.6 1.0 SG I:CYS66 4.5 61.8 1.0 N I:VAL68 4.8 62.1 1.0 CE2 I:TYR96 5.0 57.6 1.0 N I:GLU67 5.0 63.4 1.0

Iron binding site 7 out of 14 in the Cryo-Em Structure of Cyanobacteria Fd-Ndh-1L Complex


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 Cyanobacteria Fd-Ndh-1L Complex within 5.0Å range: probe atom residue distance (Å) B Occ I:Fe202 b:86.3 occ:1.00 FE3 I:SF4202 0.0 86.3 1.0 S4 I:SF4202 2.3 86.3 1.0 S2 I:SF4202 2.3 86.3 1.0 S1 I:SF4202 2.3 86.3 1.0 SG I:CYS63 2.7 71.8 1.0 FE1 I:SF4202 2.7 86.3 1.0 FE4 I:SF4202 2.8 86.3 1.0 FE2 I:SF4202 2.8 86.3 1.0 SG I:CYS117 3.5 65.3 1.0 CB I:CYS63 3.7 71.8 1.0 S3 I:SF4202 3.9 86.3 1.0 CB I:CYS117 4.0 65.3 1.0 CA I:CYS63 4.1 71.8 1.0 CE2 I:PHE58 4.2 62.1 1.0 N I:ILE64 4.3 75.4 1.0 N I:ALA65 4.3 70.6 1.0 SG I:CYS66 4.4 61.8 1.0 C I:CYS63 4.8 71.8 1.0 CA I:ALA65 4.8 70.6 1.0 N I:CYS66 4.9 61.8 1.0 CZ I:PHE58 5.0 62.1 1.0

Iron binding site 8 out of 14 in the Cryo-Em Structure of Cyanobacteria Fd-Ndh-1L Complex


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 Cyanobacteria Fd-Ndh-1L Complex within 5.0Å range: probe atom residue distance (Å) B Occ I:Fe202 b:86.3 occ:1.00 FE4 I:SF4202 0.0 86.3 1.0 SG I:CYS66 1.9 61.8 1.0 S3 I:SF4202 2.3 86.3 1.0 S2 I:SF4202 2.3 86.3 1.0 S1 I:SF4202 2.3 86.3 1.0 FE1 I:SF4202 2.6 86.3 1.0 FE3 I:SF4202 2.8 86.3 1.0 FE2 I:SF4202 2.8 86.3 1.0 CB I:CYS66 3.5 61.8 1.0 N I:CYS66 3.5 61.8 1.0 S4 I:SF4202 3.9 86.3 1.0 CA I:CYS66 3.9 61.8 1.0 N I:GLU67 4.1 63.4 1.0 C I:CYS66 4.3 61.8 1.0 N I:VAL68 4.5 62.1 1.0 N I:ALA65 4.6 70.6 1.0 CG1 I:ILE64 4.6 75.4 1.0 C I:ALA65 4.6 70.6 1.0 CB I:VAL68 4.7 62.1 1.0 CG2 I:VAL68 4.7 62.1 1.0 CA I:ALA65 4.8 70.6 1.0 SG I:CYS63 4.9 71.8 1.0

Iron binding site 9 out of 14 in the Cryo-Em Structure of Cyanobacteria Fd-Ndh-1L Complex


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 Cyanobacteria Fd-Ndh-1L Complex within 5.0Å range: probe atom residue distance (Å) B Occ K:Fe301 b:75.9 occ:1.00 FE1 K:SF4301 0.0 75.9 1.0 S3 K:SF4301 2.3 75.9 1.0 S4 K:SF4301 2.3 75.9 1.0 S2 K:SF4301 2.3 75.9 1.0 SG K:CYS117 2.5 33.3 1.0 FE4 K:SF4301 2.6 75.9 1.0 FE2 K:SF4301 2.7 75.9 1.0 FE3 K:SF4301 2.8 75.9 1.0 CB K:CYS117 3.6 33.3 1.0 S1 K:SF4301 3.9 75.9 1.0 OG1 K:THR89 4.2 35.0 1.0 N K:CYS117 4.3 33.3 1.0 SG K:CYS148 4.4 42.6 1.0 CA K:CYS117 4.6 33.3 1.0

Iron binding site 10 out of 14 in the Cryo-Em Structure of Cyanobacteria Fd-Ndh-1L Complex


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 Cyanobacteria Fd-Ndh-1L Complex within 5.0Å range: probe atom residue distance (Å) B Occ K:Fe301 b:75.9 occ:1.00 FE2 K:SF4301 0.0 75.9 1.0 S1 K:SF4301 2.3 75.9 1.0 S4 K:SF4301 2.3 75.9 1.0 S3 K:SF4301 2.3 75.9 1.0 SG K:CYS53 2.6 42.5 1.0 FE3 K:SF4301 2.7 75.9 1.0 FE1 K:SF4301 2.7 75.9 1.0 FE4 K:SF4301 2.7 75.9 1.0 S2 K:SF4301 3.9 75.9 1.0 SG K:CYS117 4.2 33.3 1.0 CB K:CYS53 4.2 42.5 1.0 SG K:CYS52 4.3 47.6 1.0 CA K:GLY115 4.6 31.7 1.0 N K:CYS53 4.7 42.5 1.0 CB K:PRO149 4.8 45.6 1.0 CA K:CYS53 4.9 42.5 1.0 CA K:PRO149 5.0 45.6 1.0 SG K:CYS148 5.0 42.6 1.0

W.Ma, M.Lei, J.Wu, J.Shuai, C.Zhang, Z.Ran, J.Zhao, Z.Wu, R.Liao. Structural Insights Into Ndh-1 Mediated Cyclic Electron Transfer Nat Commun 2020.
ISSN: ESSN 2041-1723
DOI: 10.1038/S41467-020-14732-Z