Iron in PDB 6k4m: Cryo-Em Structure of Holo-Bacterioferritin Form-II From Streptomyces Coelicolor

All present enzymatic activity of Cryo-Em Structure of Holo-Bacterioferritin Form-II From Streptomyces Coelicolor:
1.16.3.1;

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 30; Page 4, Binding sites: 31 - 36;

Binding sites:

The binding sites of Iron atom in the Cryo-Em Structure of Holo-Bacterioferritin Form-II From Streptomyces Coelicolor (pdb code 6k4m). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 36 binding sites of Iron where determined in the Cryo-Em Structure of Holo-Bacterioferritin Form-II From Streptomyces Coelicolor, PDB code: 6k4m:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Iron binding site 1 out of 36 in the Cryo-Em Structure of Holo-Bacterioferritin Form-II From Streptomyces Coelicolor


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Cryo-Em Structure of Holo-Bacterioferritin Form-II From Streptomyces Coelicolor within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe201 b:534.2 occ:1.00 OE1 A:GLU51 2.7 457.2 1.0 OE2 A:GLU127 2.8 440.4 1.0 ND1 A:HIS54 2.8 440.9 1.0 OE2 A:GLU51 3.0 457.2 1.0 CG A:HIS54 3.0 440.9 1.0 CD A:GLU51 3.1 457.2 1.0 CD1 A:ILE123 3.2 407.8 1.0 CG1 A:ILE123 3.2 407.8 1.0 CE1 A:HIS54 3.2 440.9 1.0 CD A:GLU127 3.5 440.4 1.0 CD2 A:HIS54 3.5 440.9 1.0 CB A:HIS54 3.6 440.9 1.0 NE2 A:HIS54 3.6 440.9 1.0 OE1 A:GLU127 3.8 440.4 1.0 OE2 A:GLU18 4.3 355.3 1.0 OE1 A:GLU18 4.3 355.3 1.0 CG A:GLU51 4.5 457.2 1.0 CG A:GLU127 4.5 440.4 1.0 CD A:GLU18 4.7 355.3 1.0 CB A:ILE123 4.7 407.8 1.0 CA A:GLU51 4.8 457.2 1.0 CE1 A:HIS130 4.8 434.9 1.0 O A:ILE123 4.9 407.8 1.0 CB A:GLU51 4.9 457.2 1.0

Iron binding site 2 out of 36 in the Cryo-Em Structure of Holo-Bacterioferritin Form-II From Streptomyces Coelicolor


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Cryo-Em Structure of Holo-Bacterioferritin Form-II From Streptomyces Coelicolor within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe202 b:462.1 occ:1.00 FE A:HEM202 0.0 462.1 1.0 ND A:HEM202 2.0 462.1 1.0 NB A:HEM202 2.0 462.1 1.0 NA A:HEM202 2.1 462.1 1.0 NC A:HEM202 2.1 462.1 1.0 CE A:MET52 2.7 463.2 1.0 SD B:MET52 2.9 456.8 1.0 C4A A:HEM202 2.9 462.1 1.0 C1A A:HEM202 2.9 462.1 1.0 CE B:MET52 3.0 456.8 1.0 C1D A:HEM202 3.0 462.1 1.0 C1B A:HEM202 3.0 462.1 1.0 C4D A:HEM202 3.0 462.1 1.0 SD A:MET52 3.0 463.2 1.0 C4C A:HEM202 3.1 462.1 1.0 C1C A:HEM202 3.1 462.1 1.0 C4B A:HEM202 3.1 462.1 1.0 CHB A:HEM202 3.3 462.1 1.0 CHA A:HEM202 3.4 462.1 1.0 CHD A:HEM202 3.4 462.1 1.0 CHC A:HEM202 3.4 462.1 1.0 C3A A:HEM202 4.0 462.1 1.0 C2A A:HEM202 4.0 462.1 1.0 C2D A:HEM202 4.2 462.1 1.0 C3D A:HEM202 4.2 462.1 1.0 C2B A:HEM202 4.2 462.1 1.0 C2C A:HEM202 4.3 462.1 1.0 C3C A:HEM202 4.3 462.1 1.0 C3B A:HEM202 4.3 462.1 1.0 CE1 A:PHE49 4.5 463.8 1.0 CG B:MET52 4.6 456.8 1.0 CG A:MET52 4.7 463.2 1.0 CD1 A:PHE49 4.8 463.8 1.0

Iron binding site 3 out of 36 in the Cryo-Em Structure of Holo-Bacterioferritin Form-II From Streptomyces Coelicolor


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Cryo-Em Structure of Holo-Bacterioferritin Form-II From Streptomyces Coelicolor within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe200 b:563.1 occ:1.00 OE1 B:GLU51 2.8 453.2 1.0 ND1 B:HIS54 2.9 450.2 1.0 CG B:HIS54 3.0 450.2 1.0 OE1 B:GLU127 3.1 454.7 1.0 CB B:HIS54 3.2 450.2 1.0 CE1 B:HIS54 3.6 450.2 1.0 CD B:GLU51 3.6 453.2 1.0 CG2 B:ILE123 3.6 422.0 1.0 CB B:ILE123 3.7 422.0 1.0 CD2 B:HIS54 3.8 450.2 1.0 CD B:GLU127 3.9 454.7 1.0 OE2 B:GLU18 3.9 341.3 1.0 OE2 B:GLU51 3.9 453.2 1.0 NE2 B:HIS54 4.1 450.2 1.0 O B:ILE123 4.4 422.0 1.0 CA B:ILE123 4.4 422.0 1.0 OE2 B:GLU127 4.5 454.7 1.0 CG B:GLU127 4.6 454.7 1.0 CA B:HIS54 4.7 450.2 1.0 CD B:GLU18 4.8 341.3 1.0 OD2 B:ASP126 4.8 458.8 1.0 OE1 B:GLU18 4.8 341.3 1.0 C B:ILE123 4.8 422.0 1.0 CG B:GLU51 4.9 453.2 1.0 CA B:GLU51 4.9 453.2 1.0 CG1 B:ILE123 4.9 422.0 1.0 CD1 B:ILE123 4.9 422.0 1.0

Iron binding site 4 out of 36 in the Cryo-Em Structure of Holo-Bacterioferritin Form-II From Streptomyces Coelicolor


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Cryo-Em Structure of Holo-Bacterioferritin Form-II From Streptomyces Coelicolor within 5.0Å range: probe atom residue distance (Å) B Occ C:Fe201 b:517.1 occ:1.00 OE1 C:GLU51 2.7 447.4 1.0 OE2 C:GLU127 2.8 434.3 1.0 ND1 C:HIS54 2.8 421.2 1.0 CG C:HIS54 3.1 421.2 1.0 CG1 C:ILE123 3.1 407.8 1.0 CD1 C:ILE123 3.3 407.8 1.0 CB C:HIS54 3.4 421.2 1.0 CE1 C:HIS54 3.5 421.2 1.0 CD C:GLU51 3.5 447.4 1.0 CD C:GLU127 3.8 434.3 1.0 CD2 C:HIS54 3.8 421.2 1.0 NE2 C:HIS54 4.0 421.2 1.0 OE1 C:GLU18 4.1 336.2 1.0 OD2 C:ASP126 4.1 438.2 1.0 OE2 C:GLU51 4.1 447.4 1.0 O C:ILE123 4.3 407.8 1.0 CG C:GLU51 4.4 447.4 1.0 CB C:ILE123 4.4 407.8 1.0 CA C:GLU51 4.5 447.4 1.0 CG C:GLU127 4.5 434.3 1.0 OE1 C:GLU127 4.5 434.3 1.0 OE2 C:GLU18 4.7 336.2 1.0 CA C:ILE123 4.7 407.8 1.0 CD C:GLU18 4.8 336.2 1.0 CB C:ASP126 4.8 438.2 1.0 CB C:GLU51 4.8 447.4 1.0 CA C:HIS54 4.9 421.2 1.0 CG C:ASP126 4.9 438.2 1.0 C C:ILE123 5.0 407.8 1.0

Iron binding site 5 out of 36 in the Cryo-Em Structure of Holo-Bacterioferritin Form-II From Streptomyces Coelicolor


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Cryo-Em Structure of Holo-Bacterioferritin Form-II From Streptomyces Coelicolor within 5.0Å range: probe atom residue distance (Å) B Occ C:Fe202 b:491.8 occ:1.00 FE C:HEM202 0.0 491.8 1.0 NA C:HEM202 2.0 491.8 1.0 NC C:HEM202 2.1 491.8 1.0 NB C:HEM202 2.1 491.8 1.0 ND C:HEM202 2.1 491.8 1.0 CE C:MET52 2.3 475.0 1.0 SD C:MET52 2.9 475.0 1.0 C4C C:HEM202 3.0 491.8 1.0 C1C C:HEM202 3.0 491.8 1.0 C4A C:HEM202 3.0 491.8 1.0 C1D C:HEM202 3.0 491.8 1.0 C1A C:HEM202 3.1 491.8 1.0 C4B C:HEM202 3.1 491.8 1.0 C1B C:HEM202 3.1 491.8 1.0 C4D C:HEM202 3.1 491.8 1.0 CE D:MET52 3.3 467.7 1.0 CHD C:HEM202 3.3 491.8 1.0 CHB C:HEM202 3.4 491.8 1.0 CHC C:HEM202 3.4 491.8 1.0 CHA C:HEM202 3.4 491.8 1.0 SD D:MET52 4.0 467.7 1.0 C3C C:HEM202 4.1 491.8 1.0 C2C C:HEM202 4.1 491.8 1.0 C2D C:HEM202 4.2 491.8 1.0 C3D C:HEM202 4.2 491.8 1.0 C3A C:HEM202 4.2 491.8 1.0 C2A C:HEM202 4.3 491.8 1.0 C2B C:HEM202 4.3 491.8 1.0 C3B C:HEM202 4.3 491.8 1.0 CD1 C:PHE49 4.4 466.1 1.0 CE1 C:PHE49 4.5 466.1 1.0 CG C:MET52 4.6 475.0 1.0 CG D:MET52 4.9 467.7 1.0

Iron binding site 6 out of 36 in the Cryo-Em Structure of Holo-Bacterioferritin Form-II From Streptomyces Coelicolor


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of Cryo-Em Structure of Holo-Bacterioferritin Form-II From Streptomyces Coelicolor within 5.0Å range: probe atom residue distance (Å) B Occ D:Fe201 b:547.0 occ:1.00 OE1 D:GLU51 2.7 449.7 1.0 OE2 D:GLU127 2.8 430.6 1.0 ND1 D:HIS54 2.9 424.8 1.0 CG D:HIS54 3.0 424.8 1.0 CG1 D:ILE123 3.1 416.3 1.0 CE1 D:HIS54 3.3 424.8 1.0 CD1 D:ILE123 3.4 416.3 1.0 CD2 D:HIS54 3.5 424.8 1.0 CD D:GLU127 3.5 430.6 1.0 CB D:HIS54 3.5 424.8 1.0 NE2 D:HIS54 3.7 424.8 1.0 CD D:GLU51 3.7 449.7 1.0 OE1 D:GLU18 3.8 335.0 1.0 OE2 D:GLU51 4.1 449.7 1.0 OE1 D:GLU127 4.2 430.6 1.0 CG D:GLU127 4.3 430.6 1.0 OE2 D:GLU18 4.3 335.0 1.0 CD D:GLU18 4.5 335.0 1.0 O D:ILE123 4.5 416.3 1.0 CB D:ILE123 4.6 416.3 1.0 CA D:GLU51 4.9 449.7 1.0 CG D:GLU51 4.9 449.7 1.0 OD2 D:ASP126 4.9 433.1 1.0 CB D:GLU51 5.0 449.7 1.0

Iron binding site 7 out of 36 in the Cryo-Em Structure of Holo-Bacterioferritin Form-II From Streptomyces Coelicolor


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 7 of Cryo-Em Structure of Holo-Bacterioferritin Form-II From Streptomyces Coelicolor within 5.0Å range: probe atom residue distance (Å) B Occ F:Fe201 b:561.0 occ:1.00 OE1 F:GLU51 2.7 457.0 1.0 OE2 F:GLU127 2.8 421.9 1.0 CG F:HIS54 3.0 441.1 1.0 ND1 F:HIS54 3.0 441.1 1.0 CG2 F:ILE123 3.2 415.1 1.0 CB F:HIS54 3.3 441.1 1.0 CD2 F:HIS54 3.5 441.1 1.0 CD F:GLU51 3.5 457.0 1.0 CE1 F:HIS54 3.6 441.1 1.0 OE2 F:GLU51 3.8 457.0 1.0 CD F:GLU127 3.8 421.9 1.0 NE2 F:HIS54 3.8 441.1 1.0 OE1 F:GLU18 4.0 342.1 1.0 OE2 F:GLU18 4.1 342.1 1.0 OE1 F:GLU127 4.3 421.9 1.0 CD F:GLU18 4.4 342.1 1.0 CB F:ILE123 4.5 415.1 1.0 CD1 F:ILE123 4.6 415.1 1.0 O F:ILE123 4.7 415.1 1.0 CA F:HIS54 4.8 441.1 1.0 CG F:GLU127 4.8 421.9 1.0 CA F:ILE123 4.8 415.1 1.0 CG F:GLU51 4.8 457.0 1.0 CA F:GLU51 4.9 457.0 1.0 CG1 F:ILE123 5.0 415.1 1.0

Iron binding site 8 out of 36 in the Cryo-Em Structure of Holo-Bacterioferritin Form-II From Streptomyces Coelicolor


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 8 of Cryo-Em Structure of Holo-Bacterioferritin Form-II From Streptomyces Coelicolor within 5.0Å range: probe atom residue distance (Å) B Occ F:Fe202 b:473.9 occ:1.00 FE F:HEM202 0.0 473.9 1.0 NA F:HEM202 2.0 473.9 1.0 ND F:HEM202 2.0 473.9 1.0 NB F:HEM202 2.0 473.9 1.0 NC F:HEM202 2.0 473.9 1.0 C4C F:HEM202 2.9 473.9 1.0 C1C F:HEM202 3.0 473.9 1.0 C1D F:HEM202 3.0 473.9 1.0 C4A F:HEM202 3.0 473.9 1.0 C1B F:HEM202 3.0 473.9 1.0 C4B F:HEM202 3.1 473.9 1.0 C4D F:HEM202 3.1 473.9 1.0 C1A F:HEM202 3.1 473.9 1.0 SD E:MET52 3.2 452.7 1.0 SD F:MET52 3.2 464.5 1.0 CE E:MET52 3.2 452.7 1.0 CE F:MET52 3.3 464.5 1.0 CHD F:HEM202 3.3 473.9 1.0 CHB F:HEM202 3.4 473.9 1.0 CHC F:HEM202 3.4 473.9 1.0 CHA F:HEM202 3.5 473.9 1.0 C3C F:HEM202 4.0 473.9 1.0 C2C F:HEM202 4.0 473.9 1.0 CG E:MET52 4.1 452.7 1.0 C2D F:HEM202 4.2 473.9 1.0 C3D F:HEM202 4.2 473.9 1.0 C2B F:HEM202 4.2 473.9 1.0 C3A F:HEM202 4.2 473.9 1.0 C3B F:HEM202 4.3 473.9 1.0 C2A F:HEM202 4.3 473.9 1.0 CG F:MET52 4.7 464.5 1.0

Iron binding site 9 out of 36 in the Cryo-Em Structure of Holo-Bacterioferritin Form-II From Streptomyces Coelicolor


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 9 of Cryo-Em Structure of Holo-Bacterioferritin Form-II From Streptomyces Coelicolor within 5.0Å range: probe atom residue distance (Å) B Occ E:Fe201 b:557.5 occ:1.00 OE2 E:GLU51 2.8 442.1 1.0 OE1 E:GLU51 2.8 442.1 1.0 OE2 E:GLU127 2.8 442.2 1.0 ND1 E:HIS54 2.9 439.9 1.0 CG E:HIS54 3.0 439.9 1.0 CD E:GLU51 3.1 442.1 1.0 CG2 E:ILE123 3.2 419.3 1.0 CB E:HIS54 3.2 439.9 1.0 CE1 E:HIS54 3.6 439.9 1.0 CD2 E:HIS54 3.7 439.9 1.0 CD E:GLU127 3.7 442.2 1.0 NE2 E:HIS54 4.0 439.9 1.0 CD1 E:ILE123 4.0 419.3 1.0 OE1 E:GLU18 4.2 330.1 1.0 CB E:ILE123 4.2 419.3 1.0 OE1 E:GLU127 4.3 442.2 1.0 OD2 E:ASP126 4.4 442.0 1.0 O E:ILE123 4.4 419.3 1.0 CA E:ILE123 4.5 419.3 1.0 CG E:GLU127 4.6 442.2 1.0 CG1 E:ILE123 4.6 419.3 1.0 CG E:GLU51 4.6 442.1 1.0 OE2 E:GLU18 4.6 330.1 1.0 CA E:HIS54 4.7 439.9 1.0 CD E:GLU18 4.9 330.1 1.0 C E:ILE123 4.9 419.3 1.0 CB E:ASP126 4.9 442.0 1.0 CA E:GLU51 5.0 442.1 1.0

Iron binding site 10 out of 36 in the Cryo-Em Structure of Holo-Bacterioferritin Form-II From Streptomyces Coelicolor


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 10 of Cryo-Em Structure of Holo-Bacterioferritin Form-II From Streptomyces Coelicolor within 5.0Å range: probe atom residue distance (Å) B Occ G:Fe201 b:561.3 occ:1.00 OE1 G:GLU51 2.7 448.6 1.0 OE2 G:GLU127 2.8 436.2 1.0 CG G:HIS54 3.0 438.2 1.0 CG2 G:ILE123 3.1 406.1 1.0 CB G:HIS54 3.2 438.2 1.0 CD2 G:HIS54 3.3 438.2 1.0 ND1 G:HIS54 3.4 438.2 1.0 CD G:GLU127 3.4 436.2 1.0 CD G:GLU51 3.6 448.6 1.0 NE2 G:HIS54 3.9 438.2 1.0 OE2 G:GLU51 3.9 448.6 1.0 CE1 G:HIS54 3.9 438.2 1.0 OE1 G:GLU127 3.9 436.2 1.0 OE1 G:GLU18 4.0 335.6 1.0 CD1 G:ILE123 4.3 406.1 1.0 CB G:ILE123 4.3 406.1 1.0 CG G:GLU127 4.4 436.2 1.0 O G:ILE123 4.6 406.1 1.0 CA G:HIS54 4.6 438.2 1.0 OE2 G:GLU18 4.7 335.6 1.0 CA G:ILE123 4.7 406.1 1.0 CD G:GLU18 4.7 335.6 1.0 CG1 G:ILE123 4.8 406.1 1.0 CG G:GLU51 4.9 448.6 1.0

C.Jobichen, J.Sivaraman. Cryo-Em Structure of Bacterioferritin From Streptomyces Coelicolor To Be Published.