Iron in PDB 3v5x: Structure of FBXL5 Hemerythrin Domain, C2 Cell

The structure of Structure of FBXL5 Hemerythrin Domain, C2 Cell, PDB code: 3v5x was solved by D.R.Tomchick, R.K.Bruick, J.W.Thompson, C.A.Brautigam, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	27.68 / 1.85
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	60.118, 75.802, 78.727, 90.00, 111.75, 90.00
R / Rfree (%)	16.9 / 20.9

The binding sites of Iron atom in the Structure of FBXL5 Hemerythrin Domain, C2 Cell (pdb code 3v5x). 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 FBXL5 Hemerythrin Domain, C2 Cell, PDB code: 3v5x:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in the Structure of FBXL5 Hemerythrin Domain, C2 Cell


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Structure of FBXL5 Hemerythrin Domain, C2 Cell within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe201 b:26.3 occ:1.00 FE1 A:FEO201 0.0 26.3 1.0 O A:FEO201 1.9 21.0 1.0 OE2 A:GLU130 2.1 29.4 1.0 OE1 A:GLU58 2.1 25.1 1.0 OE1 A:GLU61 2.2 28.0 1.0 NE2 A:HIS80 2.2 37.8 1.0 NE2 A:HIS126 2.3 28.6 1.0 CD A:GLU58 3.1 33.9 1.0 CD A:GLU130 3.1 31.9 1.0 CE1 A:HIS80 3.1 36.9 1.0 FE2 A:FEO201 3.2 25.3 1.0 CD2 A:HIS126 3.2 27.9 1.0 HE1 A:HIS80 3.2 44.3 1.0 CE1 A:HIS126 3.3 38.7 1.0 HD2 A:HIS126 3.3 33.5 1.0 CD A:GLU61 3.3 27.0 1.0 CD2 A:HIS80 3.3 39.4 1.0 OE2 A:GLU58 3.3 30.1 1.0 OE1 A:GLU130 3.4 30.5 1.0 HE1 A:HIS126 3.5 46.5 1.0 HD2 A:HIS80 3.5 47.3 1.0 OE2 A:GLU61 3.8 30.4 1.0 HA A:GLU58 3.9 27.1 1.0 ND1 A:HIS80 4.3 38.1 1.0 HB2 A:GLU61 4.3 28.6 1.0 HD2 A:HIS57 4.3 27.7 1.0 O A:HOH314 4.3 37.1 1.0 CG A:HIS126 4.4 28.1 1.0 ND1 A:HIS126 4.4 36.8 1.0 CG A:HIS80 4.4 42.4 1.0 CG A:GLU130 4.4 32.7 1.0 CG A:GLU58 4.4 28.2 1.0 NE2 A:HIS57 4.5 22.5 1.0 CG A:GLU61 4.5 20.9 1.0 HG3 A:GLU130 4.6 39.3 1.0 HB3 A:GLU61 4.6 28.6 1.0 HG2 A:GLU130 4.6 39.3 1.0 CD2 A:HIS57 4.6 23.1 1.0 HB3 A:GLU58 4.6 26.2 1.0 HE1 A:PHE123 4.7 38.8 1.0 CB A:GLU61 4.7 23.9 1.0 CA A:GLU58 4.8 22.6 1.0 CB A:GLU58 4.9 21.8 1.0 HG3 A:GLU58 4.9 33.8 1.0 HG3 A:GLU61 4.9 25.0 1.0 HG2 A:MET127 5.0 34.4 1.0

Iron binding site 2 out of 4 in the Structure of FBXL5 Hemerythrin Domain, C2 Cell


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Structure of FBXL5 Hemerythrin Domain, C2 Cell within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe201 b:25.3 occ:1.00 FE2 A:FEO201 0.0 25.3 1.0 O A:FEO201 1.9 21.0 1.0 NE2 A:HIS15 2.1 26.1 1.0 OE2 A:GLU61 2.1 30.4 1.0 NE2 A:HIS57 2.3 22.5 1.0 OE1 A:GLU130 2.3 30.5 1.0 CD A:GLU61 2.8 27.0 1.0 OE1 A:GLU61 2.8 28.0 1.0 CE1 A:HIS15 3.1 30.5 1.0 CD2 A:HIS15 3.1 20.9 1.0 CD A:GLU130 3.2 31.9 1.0 FE1 A:FEO201 3.2 26.3 1.0 CE1 A:HIS57 3.2 23.2 1.0 HE1 A:HIS15 3.3 36.6 1.0 HE1 A:HIS57 3.3 27.9 1.0 CD2 A:HIS57 3.3 23.1 1.0 HD2 A:HIS15 3.3 25.0 1.0 HG2 A:MET127 3.3 34.4 1.0 OE2 A:GLU130 3.3 29.4 1.0 HD2 A:HIS57 3.5 27.7 1.0 HD1 A:PHE11 3.7 33.0 1.0 HD2 A:HIS126 4.0 33.5 1.0 HA A:MET127 4.1 37.7 1.0 CG A:GLU61 4.2 20.9 1.0 ND1 A:HIS15 4.2 27.1 1.0 CG A:HIS15 4.3 22.2 1.0 ND1 A:HIS57 4.3 24.1 1.0 CG A:MET127 4.3 28.6 1.0 OE2 A:GLU58 4.3 30.1 1.0 HG3 A:GLU61 4.4 25.0 1.0 HE1 A:PHE11 4.4 35.2 1.0 CG A:HIS57 4.4 20.8 1.0 CD1 A:PHE11 4.4 27.5 1.0 HG2 A:GLU61 4.5 25.0 1.0 HB2 A:GLU130 4.5 40.5 1.0 OE1 A:GLU58 4.5 25.1 1.0 CG A:GLU130 4.6 32.7 1.0 CD2 A:HIS126 4.6 27.9 1.0 NE2 A:HIS126 4.6 28.6 1.0 O A:HOH304 4.6 27.9 1.0 HE1 A:PHE123 4.7 38.8 1.0 CE1 A:PHE11 4.7 29.3 1.0 CD A:GLU58 4.8 33.9 1.0 HG3 A:MET127 4.8 34.4 1.0 HB3 A:GLU130 4.9 40.5 1.0 HB3 A:MET127 4.9 32.8 1.0 CB A:GLU130 4.9 33.7 1.0 CA A:MET127 4.9 31.4 1.0 CB A:MET127 5.0 27.3 1.0

Iron binding site 3 out of 4 in the Structure of FBXL5 Hemerythrin Domain, C2 Cell


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Structure of FBXL5 Hemerythrin Domain, C2 Cell within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe201 b:26.1 occ:1.00 FE1 B:FEO201 0.0 26.1 1.0 O B:FEO201 1.9 21.6 1.0 OE2 B:GLU130 2.1 32.4 1.0 OE1 B:GLU61 2.1 27.0 1.0 OE1 B:GLU58 2.1 31.0 1.0 NE2 B:HIS126 2.2 31.8 1.0 NE2 B:HIS80 2.2 42.4 1.0 CD B:GLU130 3.1 33.6 1.0 CD B:GLU58 3.1 32.6 1.0 FE2 B:FEO201 3.1 23.6 1.0 CD2 B:HIS80 3.1 45.1 1.0 CD2 B:HIS126 3.2 35.9 1.0 CD B:GLU61 3.2 27.9 1.0 CE1 B:HIS126 3.2 45.5 1.0 HD2 B:HIS80 3.2 54.1 1.0 CE1 B:HIS80 3.3 47.1 1.0 OE2 B:GLU58 3.3 32.5 1.0 HD2 B:HIS126 3.3 43.1 1.0 HE1 B:HIS126 3.4 54.6 1.0 OE1 B:GLU130 3.4 29.2 1.0 HE1 B:HIS80 3.5 56.5 1.0 OE2 B:GLU61 3.6 24.9 1.0 HA B:GLU58 4.0 23.1 1.0 ND1 B:HIS126 4.3 43.6 1.0 HD2 B:HIS57 4.3 22.8 1.0 CG B:HIS80 4.3 45.9 1.0 HB2 B:GLU61 4.3 28.2 1.0 CG B:HIS126 4.4 42.5 1.0 ND1 B:HIS80 4.4 43.7 1.0 CG B:GLU130 4.4 31.8 1.0 NE2 B:HIS57 4.5 19.7 1.0 CG B:GLU58 4.5 29.1 1.0 CG B:GLU61 4.5 24.7 1.0 HG2 B:GLU130 4.5 38.2 1.0 HG3 B:GLU130 4.6 38.2 1.0 HB3 B:GLU58 4.6 29.1 1.0 CD2 B:HIS57 4.6 19.0 1.0 HB3 B:GLU61 4.6 28.2 1.0 CB B:GLU61 4.7 23.5 1.0 HE1 B:PHE123 4.8 45.6 1.0 CA B:GLU58 4.8 19.2 1.0 CB B:GLU58 4.9 24.2 1.0 HG3 B:GLU61 4.9 29.6 1.0 HG3 B:GLU58 4.9 34.9 1.0 HG2 B:MET127 5.0 28.1 1.0

Iron binding site 4 out of 4 in the Structure of FBXL5 Hemerythrin Domain, C2 Cell


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Structure of FBXL5 Hemerythrin Domain, C2 Cell within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe201 b:23.6 occ:1.00 FE2 B:FEO201 0.0 23.6 1.0 O B:FEO201 1.9 21.6 1.0 OE2 B:GLU61 2.1 24.9 1.0 OE1 B:GLU130 2.1 29.2 1.0 NE2 B:HIS15 2.1 23.6 1.0 NE2 B:HIS57 2.3 19.7 1.0 CD B:GLU61 2.8 27.9 1.0 OE1 B:GLU61 2.9 27.0 1.0 CD B:GLU130 3.1 33.6 1.0 CE1 B:HIS15 3.1 24.1 1.0 CD2 B:HIS15 3.1 21.8 1.0 FE1 B:FEO201 3.1 26.1 1.0 CE1 B:HIS57 3.2 19.5 1.0 HE1 B:HIS15 3.2 28.9 1.0 HE1 B:HIS57 3.3 23.4 1.0 HG2 B:MET127 3.3 28.1 1.0 HD2 B:HIS15 3.3 26.2 1.0 CD2 B:HIS57 3.3 19.0 1.0 OE2 B:GLU130 3.3 32.4 1.0 HD2 B:HIS57 3.5 22.8 1.0 HD1 B:PHE11 3.7 27.4 1.0 HA B:MET127 3.9 36.1 1.0 HD2 B:HIS126 4.0 43.1 1.0 CG B:GLU61 4.2 24.7 1.0 ND1 B:HIS15 4.2 24.0 1.0 HE1 B:PHE11 4.2 30.7 1.0 CG B:HIS15 4.3 23.7 1.0 CG B:MET127 4.3 23.4 1.0 ND1 B:HIS57 4.3 20.9 1.0 OE2 B:GLU58 4.4 32.5 1.0 CD1 B:PHE11 4.4 22.9 1.0 CG B:HIS57 4.4 20.5 1.0 HG3 B:GLU61 4.4 29.6 1.0 HG2 B:GLU61 4.4 29.6 1.0 CG B:GLU130 4.5 31.8 1.0 HB2 B:GLU130 4.5 38.6 1.0 NE2 B:HIS126 4.5 31.8 1.0 OE1 B:GLU58 4.5 31.0 1.0 CD2 B:HIS126 4.6 35.9 1.0 O B:HOH305 4.6 25.9 1.0 CE1 B:PHE11 4.7 25.6 1.0 HG3 B:MET127 4.8 28.1 1.0 CA B:MET127 4.8 30.1 1.0 HE1 B:PHE123 4.8 45.6 1.0 CD B:GLU58 4.8 32.6 1.0 HB3 B:GLU130 4.9 38.6 1.0 CB B:GLU130 4.9 32.2 1.0 HG3 B:GLU130 4.9 38.2 1.0 HB3 B:MET127 4.9 31.5 1.0 CB B:MET127 4.9 26.3 1.0

J.W.Thompson, A.A.Salahudeen, S.Chollangi, J.C.Ruiz, C.A.Brautigam, T.M.Makris, J.D.Lipscomb, D.R.Tomchick, R.K.Bruick. Structural and Molecular Characterization of Iron-Sensing Hemerythrin-Like Domain Within F-Box and Leucine-Rich Repeat Protein 5 (FBXL5). J.Biol.Chem. V. 287 7357 2012.
ISSN: ISSN 0021-9258
PubMed: 22253436
DOI: 10.1074/JBC.M111.308684