Iron in the structure of The Structure of Deoxy and Oxy Hemerythrin At 2.0 Angstroms Resolution (pdb 1hmo)

The binding sites of Iron atom in the structure of The Structure of Deoxy and Oxy Hemerythrin At 2.0 Angstroms Resolution (pdb code 1hmo). This binding sites where shown with 5.0 Angstroms radius around Iron atom. The 1hmo structure was solved by M.A.HOLMES, I.LETRONG, S.TURLEY, L.C.SIEKER, R.E.STENKAMP, with X-Ray Crystallography technique, brief refinement statistics is given in the table below: Resolution (A) 10.0-2.0 Space group P4 a (A) 86.690 b (A) 86.690 c (A) 80.780 alpha (°) 90.00 beta (°) 90.00 gamma (°) 90.00 Rfactor (%) n/a Rfree (%) n/a Iron Binding Sites: Iron binding site 1 out of 8 in 1hmo Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Iron in the PDB 1hmo. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Iron atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: A: His54, A: Phe55, A: Glu58, A: His73, A: His77, A: His101, A: Asp106, A: Tyr109, A: Feo115, A: Oxy116, conact list: Atom Atom Distance (A) Fe NE2 A:His54 4.68 Fe CD1 A:Phe55 4.88 Fe CE1 A:Phe55 4.78 Fe OE1 A:Glu58 2.20 Fe OE2 A:Glu58 3.51 Fe CD A:Glu58 3.16 Fe CG A:Glu58 4.52 Fe NE2 A:His73 2.23 Fe ND1 A:His73 4.32 Fe CD2 A:His73 3.22 Fe CE1 A:His73 3.20 Fe CG A:His73 4.38 Fe NE2 A:His77 2.16 Fe ND1 A:His77 4.18 Fe CD2 A:His77 3.14 Fe CE1 A:His77 3.11 Fe CG A:His77 4.26 Fe NE2 A:His101 2.21 Fe ND1 A:His101 4.32 Fe CD2 A:His101 3.16 Fe CE1 A:His101 3.20 Fe CG A:His101 4.30 Fe N A:Asp106 4.98 Fe CB A:Asp106 4.60 Fe OD2 A:Asp106 3.49 Fe OD1 A:Asp106 2.19 Fe CG A:Asp106 3.20 Fe CA A:Asp106 4.92 Fe CE2 A:Tyr109 4.91 Fe O A:Feo115 1.94 Fe FE1 A:Feo115 0.00 Fe FE2 A:Feo115 3.29 Fe O1 A:Oxy116 4.30 Fe O2 A:Oxy116 4.14 interactive model: Iron binding site 2 out of 8 in 1hmo Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 2 of Iron in the PDB 1hmo. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Iron atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: A: Ile21, A: His25, A: His54, A: Glu58, A: His77, A: His101, A: Ile102, A: Asp106, A: Tyr109, A: Feo115, A: Oxy116, conact list: Atom Atom Distance (A) Fe CG2 A:Ile21 4.80 Fe NE2 A:His25 2.13 Fe ND1 A:His25 4.26 Fe CD2 A:His25 3.15 Fe CE1 A:His25 3.13 Fe CG A:His25 4.29 Fe NE2 A:His54 2.24 Fe ND1 A:His54 4.32 Fe CD2 A:His54 3.23 Fe CE1 A:His54 3.17 Fe CG A:His54 4.36 Fe OE1 A:Glu58 3.37 Fe CB A:Glu58 4.92 Fe OE2 A:Glu58 2.18 Fe CD A:Glu58 3.07 Fe CG A:Glu58 4.35 Fe NE2 A:His77 4.65 Fe NE2 A:His101 4.43 Fe CD2 A:His101 4.30 Fe CG1 A:Ile102 4.73 Fe CB A:Asp106 4.37 Fe OD2 A:Asp106 2.14 Fe OD1 A:Asp106 3.34 Fe CG A:Asp106 3.10 Fe OH A:Tyr109 4.38 Fe O A:Feo115 1.66 Fe FE1 A:Feo115 3.29 Fe FE2 A:Feo115 0.00 Fe O1 A:Oxy116 2.19 Fe O2 A:Oxy116 3.20 interactive model: Iron binding site 3 out of 8 in 1hmo Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 3 of Iron in the PDB 1hmo. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Iron atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: B: His54, B: Phe55, B: Glu58, B: His73, B: His77, B: His101, B: Asp106, B: Tyr109, B: Feo115, B: Oxy116, conact list: Atom Atom Distance (A) Fe NE2 B:His54 4.50 Fe CD1 B:Phe55 4.75 Fe CE1 B:Phe55 4.70 Fe OE1 B:Glu58 2.20 Fe CB B:Glu58 4.99 Fe OE2 B:Glu58 3.35 Fe CD B:Glu58 3.10 Fe CG B:Glu58 4.49 Fe NE2 B:His73 2.26 Fe ND1 B:His73 4.36 Fe CD2 B:His73 3.27 Fe CE1 B:His73 3.25 Fe CG B:His73 4.42 Fe NE2 B:His77 2.19 Fe ND1 B:His77 4.25 Fe CD2 B:His77 3.25 Fe CE1 B:His77 3.12 Fe CG B:His77 4.36 Fe NE2 B:His101 2.24 Fe ND1 B:His101 4.38 Fe CD2 B:His101 3.08 Fe CE1 B:His101 3.33 Fe CG B:His101 4.30 Fe CB B:Asp106 4.53 Fe OD2 B:Asp106 3.44 Fe OD1 B:Asp106 2.13 Fe CG B:Asp106 3.17 Fe CA B:Asp106 4.94 Fe CE2 B:Tyr109 4.98 Fe O B:Feo115 1.91 Fe FE1 B:Feo115 0.00 Fe FE2 B:Feo115 3.29 Fe O1 B:Oxy116 4.19 Fe O2 B:Oxy116 4.47 interactive model: Iron binding site 4 out of 8 in 1hmo Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 4 of Iron in the PDB 1hmo. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Iron atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: B: Ile21, B: His25, B: His54, B: Glu58, B: His77, B: His101, B: Ile102, B: Asp106, B: Tyr109, B: Feo115, B: Oxy116, conact list: Atom Atom Distance (A) Fe CG2 B:Ile21 4.80 Fe NE2 B:His25 2.10 Fe ND1 B:His25 4.22 Fe CD2 B:His25 3.08 Fe CE1 B:His25 3.12 Fe CG B:His25 4.22 Fe NE2 B:His54 2.24 Fe ND1 B:His54 4.24 Fe CD2 B:His54 3.32 Fe CE1 B:His54 3.04 Fe CG B:His54 4.36 Fe OE1 B:Glu58 3.51 Fe OE2 B:Glu58 2.23 Fe CD B:Glu58 3.16 Fe CG B:Glu58 4.38 Fe NE2 B:His77 4.79 Fe NE2 B:His101 4.59 Fe CD2 B:His101 4.42 Fe CG1 B:Ile102 4.76 Fe CB B:Asp106 4.38 Fe OD2 B:Asp106 2.15 Fe OD1 B:Asp106 3.30 Fe CG B:Asp106 3.08 Fe OH B:Tyr109 4.36 Fe O B:Feo115 1.76 Fe FE1 B:Feo115 3.29 Fe FE2 B:Feo115 0.00 Fe O1 B:Oxy116 2.09 Fe O2 B:Oxy116 3.34 interactive model: Iron binding site 5 out of 8 in 1hmo Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 5 of Iron in the PDB 1hmo. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Iron atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: C: His54, C: Phe55, C: Glu58, C: His73, C: His77, C: His101, C: Asp106, C: Tyr109, C: Feo115, C: Oxy116, conact list: Atom Atom Distance (A) Fe NE2 C:His54 4.69 Fe CD1 C:Phe55 4.78 Fe CE1 C:Phe55 4.75 Fe OE1 C:Glu58 2.21 Fe OE2 C:Glu58 3.57 Fe CD C:Glu58 3.20 Fe CG C:Glu58 4.58 Fe NE2 C:His73 2.19 Fe ND1 C:His73 4.26 Fe CD2 C:His73 3.19 Fe CE1 C:His73 3.16 Fe CG C:His73 4.32 Fe NE2 C:His77 2.18 Fe ND1 C:His77 4.20 Fe CD2 C:His77 3.24 Fe CE1 C:His77 3.08 Fe CG C:His77 4.34 Fe NE2 C:His101 2.20 Fe ND1 C:His101 4.28 Fe CD2 C:His101 3.14 Fe CE1 C:His101 3.17 Fe CG C:His101 4.30 Fe N C:Asp106 4.93 Fe CB C:Asp106 4.56 Fe OD2 C:Asp106 3.54 Fe OD1 C:Asp106 2.14 Fe CG C:Asp106 3.19 Fe CA C:Asp106 4.87 Fe CE2 C:Tyr109 4.99 Fe O C:Feo115 1.88 Fe FE1 C:Feo115 0.00 Fe FE2 C:Feo115 3.27 Fe O1 C:Oxy116 4.36 Fe O2 C:Oxy116 4.43 interactive model: Iron binding site 6 out of 8 in 1hmo Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 6 of Iron in the PDB 1hmo. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Iron atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: C: Ile21, C: His25, C: His54, C: Glu58, C: His77, C: His101, C: Ile102, C: Asp106, C: Tyr109, C: Feo115, C: Oxy116, conact list: Atom Atom Distance (A) Fe CG2 C:Ile21 4.74 Fe NE2 C:His25 2.15 Fe ND1 C:His25 4.30 Fe CD2 C:His25 3.10 Fe CE1 C:His25 3.22 Fe CG C:His25 4.27 Fe NE2 C:His54 2.26 Fe ND1 C:His54 4.33 Fe CD2 C:His54 3.26 Fe CE1 C:His54 3.19 Fe CG C:His54 4.36 Fe OE1 C:Glu58 3.24 Fe CB C:Glu58 4.94 Fe OE2 C:Glu58 2.17 Fe CD C:Glu58 3.00 Fe CG C:Glu58 4.31 Fe NE2 C:His77 4.71 Fe NE2 C:His101 4.43 Fe CD2 C:His101 4.32 Fe CG1 C:Ile102 4.67 Fe CB C:Asp106 4.33 Fe OD2 C:Asp106 2.13 Fe OD1 C:Asp106 3.23 Fe CG C:Asp106 3.00 Fe OH C:Tyr109 4.34 Fe O C:Feo115 1.73 Fe FE1 C:Feo115 3.27 Fe FE2 C:Feo115 0.00 Fe O1 C:Oxy116 2.23 Fe O2 C:Oxy116 3.38 interactive model: Iron binding site 7 out of 8 in 1hmo Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 7 of Iron in the PDB 1hmo. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Iron atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: D: His54, D: Phe55, D: Glu58, D: His73, D: His77, D: His101, D: Asp106, D: Tyr109, D: Feo115, D: Oxy116, conact list: Atom Atom Distance (A) Fe NE2 D:His54 4.57 Fe CD1 D:Phe55 4.78 Fe CE1 D:Phe55 4.80 Fe OE1 D:Glu58 2.18 Fe CB D:Glu58 4.95 Fe OE2 D:Glu58 3.42 Fe CD D:Glu58 3.13 Fe CG D:Glu58 4.52 Fe NE2 D:His73 2.22 Fe ND1 D:His73 4.30 Fe CD2 D:His73 3.30 Fe CE1 D:His73 3.15 Fe CG D:His73 4.40 Fe NE2 D:His77 2.16 Fe ND1 D:His77 4.21 Fe CD2 D:His77 3.24 Fe CE1 D:His77 3.06 Fe CG D:His77 4.34 Fe NE2 D:His101 2.19 Fe ND1 D:His101 4.33 Fe CD2 D:His101 3.11 Fe CE1 D:His101 3.22 Fe CG D:His101 4.27 Fe CB D:Asp106 4.50 Fe OD2 D:Asp106 3.41 Fe OD1 D:Asp106 2.08 Fe CG D:Asp106 3.14 Fe CA D:Asp106 4.89 Fe CE2 D:Tyr109 4.93 Fe O D:Feo115 1.85 Fe FE1 D:Feo115 0.00 Fe FE2 D:Feo115 3.26 Fe O1 D:Oxy116 4.13 Fe O2 D:Oxy116 4.11 interactive model: Iron binding site 8 out of 8 in 1hmo Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 8 of Iron in the PDB 1hmo. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Iron atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: D: Ile21, D: His25, D: His54, D: Glu58, D: His77, D: His101, D: Ile102, D: Asp106, D: Tyr109, D: Feo115, D: Oxy116, conact list: Atom Atom Distance (A) Fe CG2 D:Ile21 4.69 Fe NE2 D:His25 2.14 Fe ND1 D:His25 4.24 Fe CD2 D:His25 3.12 Fe CE1 D:His25 3.11 Fe CG D:His25 4.26 Fe NE2 D:His54 2.24 Fe ND1 D:His54 4.29 Fe CD2 D:His54 3.19 Fe CE1 D:His54 3.18 Fe CG D:His54 4.32 Fe OE1 D:Glu58 3.39 Fe CB D:Glu58 4.97 Fe OE2 D:Glu58 2.21 Fe CD D:Glu58 3.12 Fe CG D:Glu58 4.37 Fe NE2 D:His77 4.76 Fe NE2 D:His101 4.44 Fe CD2 D:His101 4.28 Fe CG1 D:Ile102 4.74 Fe CB D:Asp106 4.40 Fe OD2 D:Asp106 2.18 Fe OD1 D:Asp106 3.30 Fe CG D:Asp106 3.12 Fe OH D:Tyr109 4.40 Fe O D:Feo115 1.77 Fe FE1 D:Feo115 3.26 Fe FE2 D:Feo115 0.00 Fe O1 D:Oxy116 2.07 Fe O2 D:Oxy116 3.17 interactive model: