Iron in PDB 6ax7: The Crystal Structure of A Lysyl Hydroxylase From Acanthamoeba Polyphaga Mimivirus

All present enzymatic activity of The Crystal Structure of A Lysyl Hydroxylase From Acanthamoeba Polyphaga Mimivirus:
1.14.11.4;

The structure of The Crystal Structure of A Lysyl Hydroxylase From Acanthamoeba Polyphaga Mimivirus, PDB code: 6ax7 was solved by H.Guo, C.Tsai, M.D.Miller, S.Alvarado, J.A.Tainer, G.N.Phillips Jr., J.M.Kurie, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.95 / 2.00
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	109.460, 109.460, 84.023, 90.00, 90.00, 90.00
R / Rfree (%)	18.3 / 21.6

The binding sites of Iron atom in the The Crystal Structure of A Lysyl Hydroxylase From Acanthamoeba Polyphaga Mimivirus (pdb code 6ax7). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 2 binding sites of Iron where determined in the The Crystal Structure of A Lysyl Hydroxylase From Acanthamoeba Polyphaga Mimivirus, PDB code: 6ax7:
Jump to Iron binding site number: 1; 2;

Iron binding site 1 out of 2 in the The Crystal Structure of A Lysyl Hydroxylase From Acanthamoeba Polyphaga Mimivirus


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of The Crystal Structure of A Lysyl Hydroxylase From Acanthamoeba Polyphaga Mimivirus within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe901 b:55.8 occ:1.00 NE2 A:HIS877 2.2 24.3 1.0 OD2 A:ASP827 2.3 22.0 1.0 NE2 A:HIS825 2.5 25.0 1.0 O A:HOH1137 2.5 31.7 1.0 CE1 A:HIS877 2.9 17.0 1.0 OD1 A:ASP827 3.0 16.9 1.0 CG A:ASP827 3.0 20.7 1.0 O A:HOH1169 3.0 41.5 1.0 CD2 A:HIS877 3.4 25.2 1.0 CD2 A:HIS825 3.4 22.7 1.0 CE1 A:HIS825 3.4 24.8 1.0 O A:HOH1077 3.9 34.0 1.0 ND1 A:HIS877 4.1 22.7 1.0 O A:HOH1114 4.2 26.3 1.0 O A:HOH1142 4.3 56.2 1.0 CG A:HIS877 4.4 22.8 1.0 CB A:ASP827 4.5 23.4 1.0 ND1 A:HIS825 4.5 22.5 1.0 CG A:HIS825 4.5 24.3 1.0 CE1 A:PHE893 4.5 18.3 1.0 CZ A:PHE893 4.6 19.9 1.0

Iron binding site 2 out of 2 in the The Crystal Structure of A Lysyl Hydroxylase From Acanthamoeba Polyphaga Mimivirus


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of The Crystal Structure of A Lysyl Hydroxylase From Acanthamoeba Polyphaga Mimivirus within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe901 b:32.3 occ:1.00 OD1 B:ASP827 2.4 14.8 1.0 NE2 B:HIS877 2.5 16.3 1.0 NE2 B:HIS825 2.5 18.8 1.0 O B:HOH1128 2.6 34.6 1.0 O B:HOH1201 2.8 24.2 1.0 CG B:ASP827 3.1 20.3 1.0 OD2 B:ASP827 3.2 16.9 1.0 CD2 B:HIS877 3.3 16.9 1.0 CD2 B:HIS825 3.3 19.5 1.0 CE1 B:HIS877 3.5 21.4 1.0 CE1 B:HIS825 3.5 20.8 1.0 O B:HOH1197 3.7 43.4 1.0 O B:HOH1087 3.9 26.4 1.0 CG B:HIS877 4.5 21.6 1.0 CG B:HIS825 4.5 21.2 1.0 ND1 B:HIS877 4.5 18.5 1.0 O B:HOH1162 4.6 24.0 1.0 ND1 B:HIS825 4.6 23.1 1.0 CB B:ASP827 4.6 13.9 1.0 CZ B:PHE893 4.7 15.9 1.0 CE1 B:PHE893 4.7 17.4 1.0

H.F.Guo, C.L.Tsai, M.Terajima, X.Tan, P.Banerjee, M.D.Miller, X.Liu, J.Yu, J.Byemerwa, S.Alvarado, T.S.Kaoud, K.N.Dalby, N.Bota-Rabassedas, Y.Chen, M.Yamauchi, J.A.Tainer, G.N.Phillips, J.M.Kurie. Pro-Metastatic Collagen Lysyl Hydroxylase Dimer Assemblies Stabilized By FE2+-Binding. Nat Commun V. 9 512 2018.
ISSN: ESSN 2041-1723
PubMed: 29410444
DOI: 10.1038/S41467-018-02859-Z