Iron in PDB 6fwr: Structure of Ding in Complex with Ssdna

The structure of Structure of Ding in Complex with Ssdna, PDB code: 6fwr was solved by K.Cheng, D.B.Wigley, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	58.86 / 2.50
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	98.971, 133.867, 58.862, 90.00, 90.00, 90.00
R / Rfree (%)	21.1 / 24.6

The binding sites of Iron atom in the Structure of Ding in Complex with Ssdna (pdb code 6fwr). 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 Ding in Complex with Ssdna, PDB code: 6fwr:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in the Structure of Ding in Complex with Ssdna


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Structure of Ding in Complex with Ssdna within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe801 b:0.3 occ:1.00 FE1 A:SF4801 0.0 0.3 1.0 S2 A:SF4801 2.1 77.3 1.0 S3 A:SF4801 2.1 0.5 1.0 S4 A:SF4801 2.1 98.7 1.0 SG A:CYS194 2.7 65.2 1.0 CB A:CYS194 2.9 70.4 1.0 FE4 A:SF4801 3.0 98.9 1.0 FE3 A:SF4801 3.0 92.7 1.0 FE2 A:SF4801 3.0 0.4 1.0 CA A:CYS194 3.5 76.6 1.0 S1 A:SF4801 3.7 85.3 1.0 N A:LEU195 3.7 74.6 1.0 C A:CYS194 4.1 78.0 1.0 OG1 A:THR189 4.3 76.3 1.0 N A:ASN196 4.4 69.2 1.0 CE2 A:PHE208 4.4 52.4 1.0 N A:CYS194 4.8 81.5 1.0 CA A:LEU195 4.8 67.9 1.0 CZ A:PHE208 5.0 54.1 1.0

Iron binding site 2 out of 4 in the Structure of Ding in Complex with Ssdna


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Structure of Ding in Complex with Ssdna within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe801 b:0.4 occ:1.00 FE2 A:SF4801 0.0 0.4 1.0 S1 A:SF4801 2.1 85.3 1.0 S4 A:SF4801 2.1 98.7 1.0 S3 A:SF4801 2.1 0.5 1.0 SG A:CYS199 2.8 0.2 1.0 CB A:CYS199 2.9 79.7 1.0 FE3 A:SF4801 3.0 92.7 1.0 FE1 A:SF4801 3.0 0.3 1.0 FE4 A:SF4801 3.0 98.9 1.0 S2 A:SF4801 3.7 77.3 1.0 SG A:CYS205 4.2 80.5 1.0 CB A:TYR201 4.4 72.6 1.0 CB A:ARG122 4.5 59.4 1.0 CA A:CYS199 4.5 76.7 1.0 NE A:ARG122 4.6 82.9 1.0 N A:LEU195 4.6 74.6 1.0 CB A:LEU195 4.7 67.5 1.0 CD1 A:LEU195 4.8 69.8 1.0 CD A:ARG122 4.9 74.2 1.0 CD1 A:TYR201 4.9 67.4 1.0 N A:TYR202 4.9 73.5 1.0

Iron binding site 3 out of 4 in the Structure of Ding in Complex with Ssdna


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Structure of Ding in Complex with Ssdna within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe801 b:92.7 occ:1.00 FE3 A:SF4801 0.0 92.7 1.0 S1 A:SF4801 2.1 85.3 1.0 S2 A:SF4801 2.1 77.3 1.0 S4 A:SF4801 2.1 98.7 1.0 SG A:CYS205 2.6 80.5 1.0 FE2 A:SF4801 3.0 0.4 1.0 FE1 A:SF4801 3.0 0.3 1.0 FE4 A:SF4801 3.0 98.9 1.0 CB A:CYS205 3.1 50.7 1.0 S3 A:SF4801 3.7 0.5 1.0 CD A:PRO121 3.9 54.1 1.0 CA A:CYS205 4.3 52.6 1.0 CE2 A:PHE208 4.4 52.4 1.0 CG A:PRO121 4.6 54.5 1.0 N A:PRO121 4.6 55.9 1.0 CD2 A:PHE208 4.7 48.3 1.0 CA A:CYS120 4.8 56.8 1.0 CB A:CYS120 5.0 57.1 1.0

Iron binding site 4 out of 4 in the Structure of Ding in Complex with Ssdna


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Structure of Ding in Complex with Ssdna within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe801 b:98.9 occ:1.00 FE4 A:SF4801 0.0 98.9 1.0 S1 A:SF4801 2.1 85.3 1.0 S3 A:SF4801 2.1 0.5 1.0 S2 A:SF4801 2.1 77.3 1.0 SG A:CYS120 2.5 61.4 1.0 FE1 A:SF4801 3.0 0.3 1.0 FE2 A:SF4801 3.0 0.4 1.0 FE3 A:SF4801 3.0 92.7 1.0 CB A:CYS120 3.1 57.1 1.0 S4 A:SF4801 3.7 98.7 1.0 CA A:CYS120 3.7 56.8 1.0 C A:CYS120 4.0 56.7 1.0 CB A:ARG122 4.0 59.4 1.0 N A:ARG122 4.2 58.4 1.0 N A:PRO121 4.2 55.9 1.0 OG1 A:THR189 4.2 76.3 1.0 CD A:PRO121 4.4 54.1 1.0 O A:CYS120 4.6 60.0 1.0 CA A:ARG122 4.7 58.3 1.0 N A:ASN123 4.9 58.5 1.0

K.Cheng, D.B.Wigley. Dna Translocation Mechanism of An Xpd Family Helicase. Elife V. 7 2018.
ISSN: ESSN 2050-084X
PubMed: 30520735
DOI: 10.7554/ELIFE.42400