Iron in PDB 9n5v: Structure of the Nad(H)-Bound Thermococcus Sibiricus Nfnabc Complex

The structure of Structure of the Nad(H)-Bound Thermococcus Sibiricus Nfnabc Complex also contains other interesting chemical elements:

Zinc

(Zn)

2 atoms

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 30; Page 4, Binding sites: 31 - 34;

Binding sites:

The binding sites of Iron atom in the Structure of the Nad(H)-Bound Thermococcus Sibiricus Nfnabc Complex (pdb code 9n5v). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 34 binding sites of Iron where determined in the Structure of the Nad(H)-Bound Thermococcus Sibiricus Nfnabc Complex, PDB code: 9n5v:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Iron binding site 1 out of 34 in the Structure of the Nad(H)-Bound Thermococcus Sibiricus Nfnabc Complex


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Structure of the Nad(H)-Bound Thermococcus Sibiricus Nfnabc Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe1001 b:37.0 occ:1.00 FE1 A:SF41001 0.0 37.0 1.0 SG A:CYS640 2.3 7.7 1.0 S3 A:SF41001 2.3 25.6 1.0 S4 A:SF41001 2.3 29.8 1.0 S2 A:SF41001 2.3 23.7 1.0 FE3 A:SF41001 2.7 36.9 1.0 FE4 A:SF41001 2.7 33.2 1.0 FE2 A:SF41001 2.7 35.8 1.0 CB A:CYS640 3.4 11.0 1.0 N A:LEU642 3.8 21.2 1.0 CA A:CYS640 3.8 9.7 1.0 S1 A:SF41001 3.9 16.5 1.0 N A:VAL641 4.1 10.4 1.0 CA A:LEU642 4.2 14.2 1.0 CG1 A:ILE670 4.3 25.3 1.0 C A:CYS640 4.3 15.5 1.0 N A:CYS643 4.5 16.6 1.0 CB A:ALA697 4.6 19.9 1.0 SG A:CYS693 4.8 18.9 1.0 SG A:CYS646 4.8 3.6 1.0 C A:VAL641 4.9 16.7 1.0 CB A:ILE670 4.9 21.6 1.0 SG A:CYS643 4.9 5.7 1.0 C A:LEU642 5.0 15.8 1.0 CD2 A:LEU642 5.0 14.0 1.0

Iron binding site 2 out of 34 in the Structure of the Nad(H)-Bound Thermococcus Sibiricus Nfnabc Complex


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Structure of the Nad(H)-Bound Thermococcus Sibiricus Nfnabc Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe1001 b:35.8 occ:1.00 FE2 A:SF41001 0.0 35.8 1.0 SG A:CYS643 2.3 5.7 1.0 S1 A:SF41001 2.3 16.5 1.0 S3 A:SF41001 2.3 25.6 1.0 S4 A:SF41001 2.3 29.8 1.0 FE4 A:SF41001 2.7 33.2 1.0 FE3 A:SF41001 2.7 36.9 1.0 FE1 A:SF41001 2.7 37.0 1.0 N A:CYS643 3.4 16.6 1.0 CB A:CYS643 3.6 10.6 1.0 N A:GLY644 3.7 5.4 1.0 CA A:CYS643 3.9 13.5 1.0 S2 A:SF41001 3.9 23.7 1.0 C A:CYS643 4.1 19.1 1.0 CD A:PRO694 4.2 16.0 1.0 N A:GLN645 4.3 19.1 1.0 N A:LEU642 4.4 21.2 1.0 C A:LEU642 4.5 15.8 1.0 CA A:LEU642 4.6 14.2 1.0 SG A:CYS693 4.7 18.9 1.0 CA A:GLY644 4.7 5.8 1.0 SG A:CYS646 4.7 3.6 1.0 CG2 A:VAL641 4.7 14.3 1.0 SG A:CYS640 4.8 7.7 1.0 CG A:PRO694 4.9 20.3 1.0 C A:GLY644 5.0 13.0 1.0

Iron binding site 3 out of 34 in the Structure of the Nad(H)-Bound Thermococcus Sibiricus Nfnabc Complex


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Structure of the Nad(H)-Bound Thermococcus Sibiricus Nfnabc Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe1001 b:36.9 occ:1.00 FE3 A:SF41001 0.0 36.9 1.0 SG A:CYS646 2.3 3.6 1.0 S4 A:SF41001 2.3 29.8 1.0 S1 A:SF41001 2.3 16.5 1.0 S2 A:SF41001 2.3 23.7 1.0 FE1 A:SF41001 2.7 37.0 1.0 FE2 A:SF41001 2.7 35.8 1.0 FE4 A:SF41001 2.7 33.2 1.0 CB A:CYS646 3.4 17.5 1.0 S3 A:SF41001 3.9 25.6 1.0 N A:CYS646 4.0 16.2 1.0 CD1 A:ILE698 4.3 15.4 1.0 CG1 A:ILE670 4.3 25.3 1.0 CA A:CYS646 4.3 15.7 1.0 CG2 A:ILE670 4.5 24.0 1.0 CB A:ILE670 4.6 21.6 1.0 N A:GLY644 4.7 5.4 1.0 SG A:CYS640 4.7 7.7 1.0 SG A:CYS643 4.7 5.7 1.0 N A:GLN645 4.7 19.1 1.0 SG A:CYS693 4.8 18.9 1.0 CG1 A:ILE698 5.0 29.0 1.0 CA A:GLY644 5.0 5.8 1.0

Iron binding site 4 out of 34 in the Structure of the Nad(H)-Bound Thermococcus Sibiricus Nfnabc Complex


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Structure of the Nad(H)-Bound Thermococcus Sibiricus Nfnabc Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe1001 b:33.2 occ:1.00 FE4 A:SF41001 0.0 33.2 1.0 SG A:CYS693 2.3 18.9 1.0 S3 A:SF41001 2.3 25.6 1.0 S1 A:SF41001 2.3 16.5 1.0 S2 A:SF41001 2.3 23.7 1.0 FE2 A:SF41001 2.7 35.8 1.0 FE1 A:SF41001 2.7 37.0 1.0 FE3 A:SF41001 2.7 36.9 1.0 CB A:CYS693 3.3 14.0 1.0 CA A:CYS693 3.9 16.5 1.0 S4 A:SF41001 3.9 29.8 1.0 CB A:ALA697 3.9 19.9 1.0 CD A:PRO694 4.1 16.0 1.0 CG1 A:ILE698 4.5 29.0 1.0 CD1 A:ILE698 4.5 15.4 1.0 SG A:CYS643 4.6 5.7 1.0 N A:PRO694 4.7 14.7 1.0 C A:CYS693 4.7 22.2 1.0 CG2 A:VAL695 4.7 22.9 1.0 SG A:CYS646 4.8 3.6 1.0 SG A:CYS640 4.8 7.7 1.0 N A:ALA697 4.9 27.2 1.0 CA A:ALA697 4.9 15.9 1.0 N A:ILE698 4.9 29.2 1.0 N A:CYS693 5.0 13.5 1.0

Iron binding site 5 out of 34 in the Structure of the Nad(H)-Bound Thermococcus Sibiricus Nfnabc Complex


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Structure of the Nad(H)-Bound Thermococcus Sibiricus Nfnabc Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe1002 b:86.5 occ:1.00 FE1 A:SF41002 0.0 86.5 1.0 SG A:CYS111 2.3 24.6 1.0 S3 A:SF41002 2.3 59.1 1.0 S4 A:SF41002 2.3 70.5 1.0 S2 A:SF41002 2.3 71.7 1.0 FE3 A:SF41002 2.7 93.4 1.0 FE4 A:SF41002 2.7 94.5 1.0 FE2 A:SF41002 2.7 85.3 1.0 CB A:CYS111 3.3 18.0 1.0 S1 A:SF41002 3.9 52.2 1.0 CA A:CYS111 4.0 17.5 1.0 CE2 A:TYR140 4.1 16.3 1.0 CG1 A:ILE483 4.4 16.2 1.0 CD1 A:ILE483 4.6 17.5 1.0 CD2 A:TYR140 4.6 19.9 1.0 CB A:CYS154 4.7 14.9 1.0 CD A:PRO112 4.7 9.3 1.0 SG A:CYS154 4.8 10.0 1.0 CZ A:TYR140 4.8 18.4 1.0 SG A:CYS150 4.8 38.0 1.0 C A:CYS111 4.8 24.8 1.0 OH A:TYR140 4.9 17.2 1.0 N A:PRO112 5.0 13.6 1.0

Iron binding site 6 out of 34 in the Structure of the Nad(H)-Bound Thermococcus Sibiricus Nfnabc Complex


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of Structure of the Nad(H)-Bound Thermococcus Sibiricus Nfnabc Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe1002 b:85.3 occ:1.00 FE2 A:SF41002 0.0 85.3 1.0 SG A:CYS150 2.3 38.0 1.0 S4 A:SF41002 2.3 70.5 1.0 S1 A:SF41002 2.3 52.2 1.0 S3 A:SF41002 2.3 59.1 1.0 FE4 A:SF41002 2.7 94.5 1.0 FE3 A:SF41002 2.7 93.4 1.0 FE1 A:SF41002 2.7 86.5 1.0 CB A:CYS150 3.5 28.4 1.0 S2 A:SF41002 3.9 71.7 1.0 NZ A:LYS173 3.9 24.6 1.0 CA A:ALA152 4.3 7.0 1.0 N A:ALA152 4.4 24.1 1.0 N A:PHE153 4.5 20.3 1.0 CG1 A:ILE483 4.7 16.2 1.0 CB A:ILE483 4.8 15.5 1.0 SG A:CYS154 4.8 10.0 1.0 CA A:CYS150 4.8 10.2 1.0 CG2 A:ILE483 4.8 17.2 1.0 SG A:CYS111 4.9 24.6 1.0 C A:ALA152 4.9 17.9 1.0

Iron binding site 7 out of 34 in the Structure of the Nad(H)-Bound Thermococcus Sibiricus Nfnabc Complex


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 7 of Structure of the Nad(H)-Bound Thermococcus Sibiricus Nfnabc Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe1002 b:93.4 occ:1.00 FE3 A:SF41002 0.0 93.4 1.0 S2 A:SF41002 2.3 71.7 1.0 S4 A:SF41002 2.3 70.5 1.0 S1 A:SF41002 2.3 52.2 1.0 FE4 A:SF41002 2.7 94.5 1.0 FE1 A:SF41002 2.7 86.5 1.0 FE2 A:SF41002 2.7 85.3 1.0 NZ A:LYS173 2.8 24.6 1.0 OH A:TYR140 3.4 17.2 1.0 CE A:LYS173 3.4 21.6 1.0 CD A:LYS173 3.8 17.2 1.0 CZ A:TYR140 3.8 18.4 1.0 S3 A:SF41002 3.9 59.1 1.0 CE2 A:TYR140 3.9 16.3 1.0 OH A:TYR120 4.1 32.8 1.0 CE1 A:TYR140 4.7 23.2 1.0 SG A:CYS154 4.7 10.0 1.0 SG A:CYS111 4.8 24.6 1.0 SG A:CYS150 4.8 38.0 1.0 CD2 A:TYR140 4.9 19.9 1.0 CG2 A:ILE169 5.0 26.5 1.0

Iron binding site 8 out of 34 in the Structure of the Nad(H)-Bound Thermococcus Sibiricus Nfnabc Complex


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 8 of Structure of the Nad(H)-Bound Thermococcus Sibiricus Nfnabc Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe1002 b:94.5 occ:1.00 FE4 A:SF41002 0.0 94.5 1.0 SG A:CYS154 2.3 10.0 1.0 S1 A:SF41002 2.3 52.2 1.0 S3 A:SF41002 2.3 59.1 1.0 S2 A:SF41002 2.3 71.7 1.0 FE3 A:SF41002 2.7 93.4 1.0 FE2 A:SF41002 2.7 85.3 1.0 FE1 A:SF41002 2.7 86.5 1.0 CB A:CYS154 3.0 14.9 1.0 N A:CYS154 3.8 23.5 1.0 S4 A:SF41002 3.9 70.5 1.0 CA A:CYS154 4.0 11.5 1.0 CA A:ALA152 4.5 7.0 1.0 CG2 A:ILE169 4.5 26.5 1.0 N A:PHE153 4.6 20.3 1.0 SG A:CYS111 4.6 24.6 1.0 C A:ALA152 4.7 17.9 1.0 CB A:CYS111 4.8 18.0 1.0 SG A:CYS150 4.8 38.0 1.0 NZ A:LYS173 4.8 24.6 1.0 C A:PHE153 4.9 21.8 1.0

Iron binding site 9 out of 34 in the Structure of the Nad(H)-Bound Thermococcus Sibiricus Nfnabc Complex


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 9 of Structure of the Nad(H)-Bound Thermococcus Sibiricus Nfnabc Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe1003 b:31.0 occ:1.00 FE1 A:SF41003 0.0 31.0 1.0 SG A:CYS590 2.3 11.8 1.0 S3 A:SF41003 2.3 7.5 1.0 S2 A:SF41003 2.3 21.9 1.0 S4 A:SF41003 2.3 8.9 1.0 FE2 A:SF41003 2.7 36.1 1.0 FE4 A:SF41003 2.7 19.7 1.0 FE3 A:SF41003 2.7 22.4 1.0 CB A:CYS590 3.7 14.1 1.0 S1 A:SF41003 3.9 31.6 1.0 CA A:CYS590 4.1 12.1 1.0 N A:MET591 4.1 25.8 1.0 CD1 A:LEU121 4.4 7.6 1.0 CD2 A:LEU167 4.4 20.1 1.0 N A:SER592 4.4 10.6 1.0 C A:CYS590 4.5 17.7 1.0 SG A:CYS593 4.7 15.9 1.0 SG A:CYS107 4.8 13.7 1.0 SG A:CYS158 4.9 39.1 1.0

Iron binding site 10 out of 34 in the Structure of the Nad(H)-Bound Thermococcus Sibiricus Nfnabc Complex


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 10 of Structure of the Nad(H)-Bound Thermococcus Sibiricus Nfnabc Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe1003 b:36.1 occ:1.00 FE2 A:SF41003 0.0 36.1 1.0 SG A:CYS593 2.3 15.9 1.0 S4 A:SF41003 2.3 8.9 1.0 S1 A:SF41003 2.3 31.6 1.0 S3 A:SF41003 2.3 7.5 1.0 FE1 A:SF41003 2.7 31.0 1.0 FE3 A:SF41003 2.7 22.4 1.0 FE4 A:SF41003 2.7 19.7 1.0 CB A:CYS593 3.4 15.1 1.0 S2 A:SF41003 3.9 21.9 1.0 N A:CYS593 3.9 20.2 1.0 CB A:ARG159 4.1 13.4 1.0 CA A:CYS593 4.3 18.0 1.0 CG A:ARG159 4.4 21.2 1.0 N A:ARG159 4.5 15.7 1.0 N A:SER592 4.6 10.6 1.0 SG A:CYS590 4.7 11.8 1.0 SG A:CYS158 4.7 39.1 1.0 CD A:PRO106 4.7 8.0 1.0 N A:MET591 4.8 25.8 1.0 SG A:CYS107 4.8 13.7 1.0 CA A:ARG159 4.9 17.8 1.0 CB A:MET591 4.9 21.1 1.0 C A:SER592 5.0 15.5 1.0

X.Xiao, G.J.Schut, X.Feng, D.M.N.Nguyen, H.Huang, S.Wang, H.Li, M.W.W.Adams. Cryo-Em Structures Define the Electron Bifurcating Flavobicluster and Ferredoxin Binding Site in An Archaeal Nfn-Bfu Transhydrogenase. J.Biol.Chem. V. 301 08410 2025.
ISSN: ESSN 1083-351X
PubMed: 40107619
DOI: 10.1016/J.JBC.2025.108410