Iron in PDB 2abk: Refinement of the Native Structure of Endonuclease III to A Resolution of 1.85 Angstrom

All present enzymatic activity of Refinement of the Native Structure of Endonuclease III to A Resolution of 1.85 Angstrom:
4.2.99.18;

The structure of Refinement of the Native Structure of Endonuclease III to A Resolution of 1.85 Angstrom, PDB code: 2abk was solved by M.M.Thayer, J.A.Tainer, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	10.00 / 1.85
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	48.500, 65.800, 86.800, 90.00, 90.00, 90.00
R / Rfree (%)	18.5 / 21.6

The binding sites of Iron atom in the Refinement of the Native Structure of Endonuclease III to A Resolution of 1.85 Angstrom (pdb code 2abk). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 4 binding sites of Iron where determined in the Refinement of the Native Structure of Endonuclease III to A Resolution of 1.85 Angstrom, PDB code: 2abk:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in the Refinement of the Native Structure of Endonuclease III to A Resolution of 1.85 Angstrom


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Refinement of the Native Structure of Endonuclease III to A Resolution of 1.85 Angstrom within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe300 b:16.0 occ:1.00 FE1 A:SF4300 0.0 16.0 1.0 S3 A:SF4300 2.3 15.5 1.0 S4 A:SF4300 2.3 15.1 1.0 SG A:CYS197 2.3 14.9 1.0 S2 A:SF4300 2.3 16.4 1.0 FE4 A:SF4300 2.7 17.3 1.0 FE2 A:SF4300 2.7 14.8 1.0 FE3 A:SF4300 2.8 17.2 1.0 CB A:CYS197 3.1 16.2 1.0 S1 A:SF4300 3.9 17.2 1.0 NE2 A:HIS182 4.2 13.5 1.0 CG1 A:ILE199 4.4 15.3 1.0 CA A:CYS197 4.5 17.8 1.0 CE1 A:HIS182 4.6 13.5 1.0 CA A:CYS194 4.6 16.6 1.0 CA A:GLU200 4.6 19.8 1.0 N A:GLU200 4.7 18.3 1.0 CG2 A:THR186 4.7 10.7 1.0 SG A:CYS203 4.8 14.9 1.0 CB A:CYS203 4.8 14.4 1.0 SG A:CYS194 4.8 16.3 1.0 SG A:CYS187 4.8 13.5 1.0 CB A:GLU200 5.0 21.6 1.0 C A:ILE199 5.0 16.1 1.0

Iron binding site 2 out of 4 in the Refinement of the Native Structure of Endonuclease III to A Resolution of 1.85 Angstrom


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Refinement of the Native Structure of Endonuclease III to A Resolution of 1.85 Angstrom within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe300 b:14.8 occ:1.00 FE2 A:SF4300 0.0 14.8 1.0 SG A:CYS187 2.3 13.5 1.0 S4 A:SF4300 2.3 15.1 1.0 S1 A:SF4300 2.3 17.2 1.0 S3 A:SF4300 2.3 15.5 1.0 FE3 A:SF4300 2.7 17.2 1.0 FE4 A:SF4300 2.7 17.3 1.0 FE1 A:SF4300 2.7 16.0 1.0 CB A:CYS187 3.2 11.3 1.0 CA A:CYS187 3.8 11.3 1.0 S2 A:SF4300 3.9 16.4 1.0 CB A:PRO192 4.5 19.9 1.0 NE2 A:HIS182 4.6 13.5 1.0 CD A:ARG147 4.7 13.6 1.0 N A:CYS187 4.7 10.6 1.0 SG A:CYS203 4.8 14.9 1.0 SG A:CYS197 4.8 14.9 1.0 NH1 A:ARG147 4.8 13.2 1.0 SG A:CYS194 4.9 16.3 1.0 C A:CYS187 5.0 11.8 1.0

Iron binding site 3 out of 4 in the Refinement of the Native Structure of Endonuclease III to A Resolution of 1.85 Angstrom


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Refinement of the Native Structure of Endonuclease III to A Resolution of 1.85 Angstrom within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe300 b:17.2 occ:1.00 FE3 A:SF4300 0.0 17.2 1.0 S1 A:SF4300 2.3 17.2 1.0 S2 A:SF4300 2.3 16.4 1.0 SG A:CYS194 2.3 16.3 1.0 S4 A:SF4300 2.3 15.1 1.0 FE2 A:SF4300 2.7 14.8 1.0 FE4 A:SF4300 2.8 17.3 1.0 FE1 A:SF4300 2.8 16.0 1.0 CB A:CYS194 3.3 16.8 1.0 CA A:CYS194 3.6 16.6 1.0 S3 A:SF4300 3.9 15.5 1.0 CB A:PRO192 4.0 19.9 1.0 N A:CYS194 4.1 16.1 1.0 CG A:LYS208 4.6 31.0 1.0 CG A:PRO192 4.6 19.4 1.0 SG A:CYS187 4.8 13.5 1.0 SG A:CYS203 4.8 14.9 1.0 CB A:CYS197 4.8 16.2 1.0 SG A:CYS197 4.9 14.9 1.0 CD2 A:TYR205 4.9 21.0 1.0 C A:CYS194 4.9 18.5 1.0 C A:ARG193 4.9 16.0 1.0

Iron binding site 4 out of 4 in the Refinement of the Native Structure of Endonuclease III to A Resolution of 1.85 Angstrom


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Refinement of the Native Structure of Endonuclease III to A Resolution of 1.85 Angstrom within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe300 b:17.3 occ:1.00 FE4 A:SF4300 0.0 17.3 1.0 S2 A:SF4300 2.3 16.4 1.0 SG A:CYS203 2.3 14.9 1.0 S1 A:SF4300 2.3 17.2 1.0 S3 A:SF4300 2.3 15.5 1.0 FE1 A:SF4300 2.7 16.0 1.0 FE2 A:SF4300 2.7 14.8 1.0 FE3 A:SF4300 2.8 17.2 1.0 CB A:CYS203 3.1 14.4 1.0 S4 A:SF4300 3.9 15.1 1.0 CG2 A:THR148 4.3 11.4 1.0 CB A:TYR205 4.4 21.1 1.0 CA A:CYS203 4.5 16.8 1.0 CE A:LYS208 4.7 28.8 1.0 SG A:CYS187 4.8 13.5 1.0 SG A:CYS197 4.8 14.9 1.0 SG A:CYS194 4.9 16.3 1.0 CG A:LYS208 5.0 31.0 1.0

M.M.Thayer, H.Ahern, D.Xing, R.P.Cunningham, J.A.Tainer. Novel Dna Binding Motifs in the Dna Repair Enzyme Endonuclease III Crystal Structure. Embo J. V. 14 4108 1995.
ISSN: ISSN 0261-4189
PubMed: 7664751