Iron in PDB 8rev: Structure of Xpd Stalled at A Y-Fork Dna Containing A Interstrand Crosslink

All present enzymatic activity of Structure of Xpd Stalled at A Y-Fork Dna Containing A Interstrand Crosslink:
3.6.4.12;

The binding sites of Iron atom in the Structure of Xpd Stalled at A Y-Fork Dna Containing A Interstrand Crosslink (pdb code 8rev). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 4 binding sites of Iron where determined in the Structure of Xpd Stalled at A Y-Fork Dna Containing A Interstrand Crosslink, PDB code: 8rev:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in the Structure of Xpd Stalled at A Y-Fork Dna Containing A Interstrand Crosslink


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Structure of Xpd Stalled at A Y-Fork Dna Containing A Interstrand Crosslink within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe801 b:49.1 occ:1.00 FE1 A:SF4801 0.0 49.1 1.0 SG A:CYS115 2.2 108.0 1.0 S4 A:SF4801 2.2 56.0 1.0 S3 A:SF4801 2.2 36.4 1.0 S2 A:SF4801 2.3 47.3 1.0 FE2 A:SF4801 2.7 52.2 1.0 FE4 A:SF4801 2.7 51.4 1.0 FE3 A:SF4801 2.8 42.1 1.0 CB A:CYS115 3.6 96.5 1.0 CA A:CYS115 3.9 92.5 1.0 S1 A:SF4801 3.9 41.4 1.0 N A:LEU116 4.1 89.3 1.0 SG A:CYS189 4.5 96.0 1.0 N A:HIS117 4.5 110.1 1.0 CB A:HIS117 4.6 104.1 1.0 C A:CYS115 4.6 93.1 1.0 SG A:CYS154 4.6 106.7 1.0 CG1 A:VAL120 4.7 104.1 1.0 CB A:VAL120 4.8 106.8 1.0 CB A:CYS133 4.9 100.8 1.0

Iron binding site 2 out of 4 in the Structure of Xpd Stalled at A Y-Fork Dna Containing A Interstrand Crosslink


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Structure of Xpd Stalled at A Y-Fork Dna Containing A Interstrand Crosslink within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe801 b:52.2 occ:1.00 FE2 A:SF4801 0.0 52.2 1.0 SG A:CYS154 2.2 106.7 1.0 S4 A:SF4801 2.3 56.0 1.0 S3 A:SF4801 2.3 36.4 1.0 S1 A:SF4801 2.3 41.4 1.0 FE4 A:SF4801 2.6 51.4 1.0 FE1 A:SF4801 2.7 49.1 1.0 FE3 A:SF4801 2.8 42.1 1.0 S2 A:SF4801 3.8 47.3 1.0 CB A:CYS154 3.8 107.6 1.0 SG A:CYS189 4.0 96.0 1.0 CB A:TYR156 4.1 100.0 1.0 CD2 A:TYR156 4.1 102.3 1.0 CB A:HIS117 4.2 104.1 1.0 CG A:TYR156 4.6 103.2 1.0 SG A:CYS115 4.7 108.0 1.0 CB A:CYS189 4.7 88.5 1.0 N A:HIS117 4.7 110.1 1.0 N A:HIS157 4.8 105.7 1.0 O A:CYS154 4.9 106.4 1.0 CA A:CYS154 4.9 109.2 1.0

Iron binding site 3 out of 4 in the Structure of Xpd Stalled at A Y-Fork Dna Containing A Interstrand Crosslink


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Structure of Xpd Stalled at A Y-Fork Dna Containing A Interstrand Crosslink within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe801 b:42.1 occ:1.00 FE3 A:SF4801 0.0 42.1 1.0 S2 A:SF4801 2.1 47.3 1.0 S1 A:SF4801 2.3 41.4 1.0 S4 A:SF4801 2.3 56.0 1.0 SG A:CYS133 2.6 96.4 1.0 FE4 A:SF4801 2.7 51.4 1.0 FE1 A:SF4801 2.8 49.1 1.0 FE2 A:SF4801 2.8 52.2 1.0 CB A:CYS133 2.9 100.8 1.0 CA A:CYS133 3.5 100.1 1.0 S3 A:SF4801 4.0 36.4 1.0 SG A:CYS154 4.0 106.7 1.0 O A:CYS133 4.3 106.4 1.0 C A:CYS133 4.3 99.7 1.0 CE2 A:PHE192 4.5 74.0 1.0 N A:CYS133 4.6 105.1 1.0 SG A:CYS115 4.7 108.0 1.0 OG1 A:THR137 4.7 112.6 1.0 SG A:CYS189 4.9 96.0 1.0 CB A:CYS154 4.9 107.6 1.0

Iron binding site 4 out of 4 in the Structure of Xpd Stalled at A Y-Fork Dna Containing A Interstrand Crosslink


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Structure of Xpd Stalled at A Y-Fork Dna Containing A Interstrand Crosslink within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe801 b:51.4 occ:1.00 FE4 A:SF4801 0.0 51.4 1.0 S1 A:SF4801 2.2 41.4 1.0 SG A:CYS189 2.2 96.0 1.0 S2 A:SF4801 2.3 47.3 1.0 S3 A:SF4801 2.3 36.4 1.0 FE2 A:SF4801 2.6 52.2 1.0 FE3 A:SF4801 2.7 42.1 1.0 FE1 A:SF4801 2.7 49.1 1.0 CB A:CYS189 3.6 88.5 1.0 S4 A:SF4801 3.7 56.0 1.0 CD2 A:PHE192 3.9 72.9 1.0 CE2 A:PHE192 4.1 74.0 1.0 SG A:CYS133 4.4 96.4 1.0 SG A:CYS154 4.5 106.7 1.0 CA A:CYS189 4.7 91.0 1.0 SG A:CYS115 4.7 108.0 1.0

J.Kuper, T.Hove, S.Maidl, F.Sauer, M.Kempf, T.Schroeder, E.Greitier, H.Neitz, C.Hoebartner, C.Kisker. Xpd Stalled on Cross-Linked Dna Provides Insight Into Damage Verification Nature 2024.
ISSN: ESSN 1476-4687
DOI: 10.1038/S41594-024-01323-5