Iron in PDB 6efn: Structure of A Ripp Maturase, Skfb

The structure of Structure of A Ripp Maturase, Skfb, PDB code: 6efn was solved by T.A.J.Grell, C.L.Drennan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	42.57 / 1.29
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	76.462, 83.110, 61.299, 90.00, 94.38, 90.00
R / Rfree (%)	14.3 / 16.9

The structure of Structure of A Ripp Maturase, Skfb also contains other interesting chemical elements:

Magnesium

(Mg)

1 atom

The binding sites of Iron atom in the Structure of A Ripp Maturase, Skfb (pdb code 6efn). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 6 binding sites of Iron where determined in the Structure of A Ripp Maturase, Skfb, PDB code: 6efn:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6;

Iron binding site 1 out of 6 in the Structure of A Ripp Maturase, Skfb


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Structure of A Ripp Maturase, Skfb within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe502 b:12.3 occ:1.00 FE1 A:SF4502 0.0 12.3 1.0 S2 A:SF4502 2.3 13.4 1.0 SG A:CYS117 2.3 12.7 1.0 S4 A:SF4502 2.3 11.6 1.0 S3 A:SF4502 2.3 12.9 1.0 FE3 A:SF4502 2.7 12.6 1.0 FE2 A:SF4502 2.7 12.4 1.0 FE4 A:SF4502 2.8 13.2 1.0 CB A:CYS117 3.2 13.8 1.0 N A:SAM501 3.8 11.8 1.0 S1 A:SF4502 3.9 13.3 1.0 CB A:SER128 4.2 12.4 1.0 O A:LEU119 4.3 16.4 1.0 CB A:LEU119 4.3 13.8 1.0 C A:LEU119 4.5 14.7 1.0 ND2 A:ASN188 4.6 12.3 1.0 CA A:CYS117 4.7 13.1 1.0 SG A:CYS121 4.7 13.3 1.0 O A:SAM501 4.7 12.1 1.0 N A:LEU119 4.8 14.2 1.0 CA A:LEU119 4.8 13.5 1.0 C A:GLY161 4.8 10.7 1.0 SG A:CYS124 4.9 12.7 1.0 CA A:GLY161 4.9 11.1 1.0 OG A:SER128 4.9 12.5 1.0

Iron binding site 2 out of 6 in the Structure of A Ripp Maturase, Skfb


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Structure of A Ripp Maturase, Skfb within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe502 b:12.4 occ:1.00 FE2 A:SF4502 0.0 12.4 1.0 O A:SAM501 2.2 12.1 1.0 N A:SAM501 2.3 11.8 1.0 S3 A:SF4502 2.3 12.9 1.0 S4 A:SF4502 2.3 11.6 1.0 S1 A:SF4502 2.3 13.3 1.0 FE1 A:SF4502 2.7 12.3 1.0 FE3 A:SF4502 2.8 12.6 1.0 FE4 A:SF4502 2.8 13.2 1.0 C A:SAM501 3.0 13.2 1.0 CA A:SAM501 3.1 13.1 1.0 SD A:SAM501 3.4 15.0 1.0 CG A:SAM501 3.7 14.3 1.0 CB A:SAM501 4.0 14.2 1.0 S2 A:SF4502 4.0 13.4 1.0 NH1 A:ARG223 4.0 15.9 1.0 OXT A:SAM501 4.2 13.4 1.0 CE A:SAM501 4.2 17.7 1.0 SG A:CYS117 4.5 12.7 1.0 O A:GLY161 4.6 11.0 1.0 C2' A:SAM501 4.9 12.8 1.0 CB A:ASN188 4.9 11.3 1.0 SG A:CYS121 4.9 13.3 1.0 CZ A:ARG223 5.0 14.2 1.0 SG A:CYS124 5.0 12.7 1.0

Iron binding site 3 out of 6 in the Structure of A Ripp Maturase, Skfb


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Structure of A Ripp Maturase, Skfb within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe502 b:12.6 occ:1.00 FE3 A:SF4502 0.0 12.6 1.0 S4 A:SF4502 2.3 11.6 1.0 SG A:CYS121 2.3 13.3 1.0 S2 A:SF4502 2.3 13.4 1.0 S1 A:SF4502 2.3 13.3 1.0 FE4 A:SF4502 2.7 13.2 1.0 FE1 A:SF4502 2.7 12.3 1.0 FE2 A:SF4502 2.8 12.4 1.0 CB A:CYS121 3.3 14.2 1.0 NH1 A:ARG223 3.8 15.9 1.0 S3 A:SF4502 3.9 12.9 1.0 N A:CYS121 3.9 14.4 1.0 O A:SAM501 4.2 12.1 1.0 CA A:CYS121 4.2 15.1 1.0 CB A:LEU119 4.4 13.8 1.0 CZ A:ARG223 4.4 14.2 1.0 CB A:CYS124 4.6 13.5 1.0 SG A:CYS124 4.7 12.7 1.0 SG A:CYS117 4.7 12.7 1.0 CD1 A:LEU119 4.8 13.4 1.0 N A:SAM501 4.9 11.8 1.0 CE1 A:PHE123 4.9 14.5 1.0 NH2 A:ARG223 5.0 15.1 1.0 N A:SER120 5.0 15.6 0.6

Iron binding site 4 out of 6 in the Structure of A Ripp Maturase, Skfb


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Structure of A Ripp Maturase, Skfb within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe502 b:13.2 occ:1.00 FE4 A:SF4502 0.0 13.2 1.0 S3 A:SF4502 2.3 12.9 1.0 S1 A:SF4502 2.3 13.3 1.0 S2 A:SF4502 2.3 13.4 1.0 SG A:CYS124 2.3 12.7 1.0 FE3 A:SF4502 2.7 12.6 1.0 FE1 A:SF4502 2.8 12.3 1.0 FE2 A:SF4502 2.8 12.4 1.0 CB A:CYS124 3.2 13.5 1.0 CB A:SER128 3.9 12.4 1.0 S4 A:SF4502 3.9 11.6 1.0 OG A:SER128 4.0 12.5 1.0 CA A:CYS124 4.2 13.2 1.0 CE A:SAM501 4.2 17.7 1.0 SD A:SAM501 4.6 15.0 1.0 N A:SER128 4.7 13.2 1.0 SG A:CYS121 4.7 13.3 1.0 N A:SAM501 4.7 11.8 1.0 O A:SAM501 4.8 12.1 1.0 NH2 A:ARG285 4.8 16.1 1.0 CB A:CYS121 4.9 14.2 1.0 CA A:SER128 4.9 13.5 1.0

Iron binding site 5 out of 6 in the Structure of A Ripp Maturase, Skfb


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Structure of A Ripp Maturase, Skfb within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe503 b:19.6 occ:0.86 FE1 A:FES503 0.0 19.6 0.9 S1 A:FES503 2.2 24.1 0.9 S2 A:FES503 2.2 20.6 0.9 SG A:CYS351 2.3 18.9 1.0 SG A:CYS385 2.3 22.2 1.0 FE2 A:FES503 2.8 23.7 0.9 CB A:CYS351 3.2 17.2 1.0 CB A:CYS385 3.2 24.0 1.0 CA A:CYS385 3.7 25.6 1.0 CB A:CYS387 4.3 25.6 0.9 C A:CYS385 4.3 28.3 1.0 N A:LYS386 4.3 28.8 1.0 N A:CYS387 4.4 26.9 0.9 SG A:CYS387 4.4 25.8 0.9 CB A:PRO335 4.5 17.8 1.0 CA A:CYS351 4.5 14.5 1.0 CG A:PRO335 4.6 18.9 1.0 O A:HOH990 4.8 24.7 1.0 N A:CYS385 4.9 25.8 1.0 CD1 A:LEU353 4.9 19.8 1.0 CA A:CYS387 4.9 25.9 0.9

Iron binding site 6 out of 6 in the Structure of A Ripp Maturase, Skfb


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of Structure of A Ripp Maturase, Skfb within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe503 b:23.7 occ:0.86 FE2 A:FES503 0.0 23.7 0.9 S2 A:FES503 2.2 20.6 0.9 S1 A:FES503 2.2 24.1 0.9 SG A:CYS387 2.3 25.8 0.9 O A:HOH990 2.4 24.7 1.0 FE1 A:FES503 2.8 19.6 0.9 CB A:CYS387 3.3 25.6 0.9 N A:CYS387 4.2 26.9 0.9 CA A:CYS387 4.4 25.9 0.9 SG A:CYS385 4.4 22.2 1.0 CZ A:PHE332 4.4 31.3 0.8 CE1 A:PHE332 4.5 31.8 0.8 SG A:CYS351 4.6 18.9 1.0

T.A.J.Grell, W.M.Kincannon, N.A.Bruender, E.J.Blaesi, C.Krebs, V.Bandarian, C.L.Drennan. Structure of A Ripp Maturase, Skfb J.Biol.Chem. 2018.
ISSN: ESSN 1083-351X