Uranium in the structure of Oligo-Peptide Binding Protein (Oppa) Complexed With Khk (pdb 1b3f)

The binding sites of Uranium atom in the structure of Oligo-Peptide Binding Protein (Oppa) Complexed With Khk (pdb code 1b3f). This binding sites where shown with 5.0 Angstroms radius around Uranium atom. The 1b3f structure was solved by J.R.H.TAME, A.J.WILKINSON, with X-Ray Crystallography technique, brief refinement statistics is given in the table below: Resolution (A) 15.0-1.8 Space group P212121 a (A) 109.936 b (A) 75.892 c (A) 70.594 alpha (°) 90.00 beta (°) 90.00 gamma (°) 90.00 Rfactor (%) 17.7 Rfree (%) 21.7 Uranium Binding Sites: Uranium binding site 1 out of 8 in 1b3f Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Uranium in the PDB 1b3f. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Uranium atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: A: Lys157, A: Asp323, A: Hoh537, A: Hoh609, A: Hoh630, A: Hoh705, A: Hoh774, A: Hoh923, conact list: Atom Atom Distance (A) U NZ A:Lys157 4.78 U CB A:Asp323 4.61 U OD2 A:Asp323 2.28 U OD1 A:Asp323 3.47 U CG A:Asp323 3.22 U O A:Hoh537 2.43 U O A:Hoh609 2.25 U O A:Hoh630 4.42 U O A:Hoh705 4.95 U O A:Hoh774 4.87 U O A:Hoh923 4.22 interactive model: Uranium binding site 2 out of 8 in 1b3f Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 2 of Uranium in the PDB 1b3f. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Uranium atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: A: Ium520, A: Hoh553, A: Hoh570, A: Hoh579, A: Hoh588, A: Hoh620, A: Hoh640, A: Hoh751, A: Hoh774, A: Hoh896, conact list: Atom Atom Distance (A) U U A:Ium520 4.17 U O A:Hoh553 2.54 U O A:Hoh570 4.39 U O A:Hoh579 2.38 U O A:Hoh588 4.62 U O A:Hoh620 2.58 U O A:Hoh640 4.73 U O A:Hoh751 3.73 U O A:Hoh774 4.29 U O A:Hoh896 4.68 interactive model: Uranium binding site 3 out of 8 in 1b3f Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 3 of Uranium in the PDB 1b3f. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Uranium atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: A: Pro153, A: Asp459, A: Arg462, A: Ium519, A: Hoh553, A: Hoh579, A: Hoh588, A: Hoh605, A: Hoh640, A: Hoh651, A: Hoh659, A: Hoh692, A: Hoh746, A: Hoh774, A: Hoh896, conact list: Atom Atom Distance (A) U CB A:Pro153 4.96 U OD2 A:Asp459 4.12 U OD1 A:Asp459 4.23 U CG A:Asp459 4.42 U NH1 A:Arg462 4.96 U U A:Ium519 4.17 U O A:Hoh553 4.61 U O A:Hoh579 4.64 U O A:Hoh588 2.31 U O A:Hoh605 2.53 U O A:Hoh640 2.48 U O A:Hoh651 2.35 U O A:Hoh659 4.43 U O A:Hoh692 4.56 U O A:Hoh746 4.92 U O A:Hoh774 4.88 U O A:Hoh896 4.57 interactive model: Uranium binding site 4 out of 8 in 1b3f Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 4 of Uranium in the PDB 1b3f. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Uranium atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: A: Val230, A: Glu251, A: Asp369, A: Lys373, A: Hoh617, A: Hoh840, conact list: Atom Atom Distance (A) U CG2 A:Val230 4.65 U OE1 A:Glu251 4.43 U OE2 A:Glu251 2.42 U CD A:Glu251 3.57 U CG A:Glu251 4.32 U CB A:Asp369 4.86 U OD1 A:Asp369 3.15 U CG A:Asp369 4.22 U CE A:Lys373 4.57 U NZ A:Lys373 4.25 U O A:Hoh617 2.44 U O A:Hoh840 2.63 interactive model: Uranium binding site 5 out of 8 in 1b3f Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 5 of Uranium in the PDB 1b3f. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Uranium atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: A: Lys281, A: Phe361, A: Asp362, A: Asp410, A: Hoh595, A: Hoh633, A: Hoh937, conact list: Atom Atom Distance (A) U NZ A:Lys281 4.08 U CA A:Phe361 4.90 U N A:Asp362 4.35 U CB A:Asp362 4.33 U OD2 A:Asp362 2.35 U OD1 A:Asp362 3.86 U CG A:Asp362 3.26 U CB A:Asp410 4.67 U OD2 A:Asp410 2.44 U OD1 A:Asp410 3.76 U CG A:Asp410 3.42 U O A:Hoh595 2.40 U O A:Hoh633 4.63 U O A:Hoh937 4.75 interactive model: Uranium binding site 6 out of 8 in 1b3f Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 6 of Uranium in the PDB 1b3f. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Uranium atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: A: His517, A: Ium524, A: Hoh797, conact list: Atom Atom Distance (A) U O A:His517 3.22 U C A:His517 3.27 U CA A:His517 4.77 U OXT A:His517 2.61 U U A:Ium524 4.11 U O A:Hoh797 4.70 interactive model: Uranium binding site 7 out of 8 in 1b3f Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 7 of Uranium in the PDB 1b3f. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Uranium atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: A: Ium523, A: Hoh805, A: Hoh838, conact list: Atom Atom Distance (A) U U A:Ium523 4.11 U O A:Hoh805 4.60 U O A:Hoh838 4.88 interactive model: Uranium binding site 8 out of 8 in 1b3f Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 8 of Uranium in the PDB 1b3f. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Uranium atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: A: Asp11, A: Hoh787, conact list: Atom Atom Distance (A) U CB A:Asp11 3.85 U OD2 A:Asp11 2.32 U OD1 A:Asp11 4.47 U CG A:Asp11 3.40 U O A:Hoh787 4.97 interactive model: