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Iron in PDB 3n9o: CEKDM7A From C.Elegans, Complex with H3K4ME3 Peptide, H3K9ME2 Peptide and Nog

Enzymatic activity of CEKDM7A From C.Elegans, Complex with H3K4ME3 Peptide, H3K9ME2 Peptide and Nog

All present enzymatic activity of CEKDM7A From C.Elegans, Complex with H3K4ME3 Peptide, H3K9ME2 Peptide and Nog:
1.14.11.27;

Protein crystallography data

The structure of CEKDM7A From C.Elegans, Complex with H3K4ME3 Peptide, H3K9ME2 Peptide and Nog, PDB code: 3n9o was solved by Y.Yang, L.Hu, P.Wang, H.Hou, C.D.Chen, Y.Xu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 44.28 / 2.31
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 69.090, 87.379, 102.727, 90.00, 90.00, 90.00
R / Rfree (%) 19.9 / 24.2

Other elements in 3n9o:

The structure of CEKDM7A From C.Elegans, Complex with H3K4ME3 Peptide, H3K9ME2 Peptide and Nog also contains other interesting chemical elements:

Zinc (Zn) 2 atoms

Iron Binding Sites:

The binding sites of Iron atom in the CEKDM7A From C.Elegans, Complex with H3K4ME3 Peptide, H3K9ME2 Peptide and Nog (pdb code 3n9o). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total only one binding site of Iron was determined in the CEKDM7A From C.Elegans, Complex with H3K4ME3 Peptide, H3K9ME2 Peptide and Nog, PDB code: 3n9o:

Iron binding site 1 out of 1 in 3n9o

Go back to Iron Binding Sites List in 3n9o
Iron binding site 1 out of 1 in the CEKDM7A From C.Elegans, Complex with H3K4ME3 Peptide, H3K9ME2 Peptide and Nog


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of CEKDM7A From C.Elegans, Complex with H3K4ME3 Peptide, H3K9ME2 Peptide and Nog within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe1

b:27.1
occ:1.00
 NE2 A:HIS495 2.1 27.2 1.0
OD2 A:ASP497 2.1 27.1 1.0
NE2 A:HIS567 2.2 29.2 1.0
O2' A:OGA4 2.2 31.6 1.0
O A:HOH7 2.2 34.2 1.0
O2 A:OGA4 2.2 40.6 1.0
C2 A:OGA4 2.8 39.0 1.0
C1 A:OGA4 2.8 45.3 1.0
CE1 A:HIS567 2.9 25.4 1.0
CE1 A:HIS495 3.0 25.0 1.0
CG A:ASP497 3.1 32.1 1.0
CD2 A:HIS495 3.2 23.7 1.0
CD2 A:HIS567 3.3 21.8 1.0
OD1 A:ASP497 3.4 44.3 1.0
O1 A:OGA4 4.0 48.3 1.0
O C:HOH83 4.1 41.0 1.0
ND1 A:HIS567 4.1 28.1 1.0
N1 A:OGA4 4.1 41.4 1.0
ND1 A:HIS495 4.2 24.8 1.0
CG A:HIS495 4.3 26.3 1.0
CG A:HIS567 4.3 25.3 1.0
CB A:ASP497 4.5 22.6 1.0
CH1 C:MLY9 4.7 33.6 1.0
CA A:ASP497 4.9 27.9 1.0
N A:ASP497 5.0 23.7 1.0
C4 A:OGA4 5.0 35.2 1.0

Reference:

Y.Yang, L.Hu, P.Wang, H.Hou, Y.Lin, Y.Liu, Z.Li, R.Gong, X.Feng, L.Zhou, W.Zhang, Y.Dong, H.Yang, H.Lin, Y.Wang, C.D.Chen, Y.Xu. Structural Insights Into A Dual-Specificity Histone Demethylase CEKDM7A From Caenorhabditis Elegans Cell Res. V. 20 886 2010.
ISSN: ISSN 1001-0602
PubMed: 20567261
DOI: 10.1038/CR.2010.86
Page generated: Tue Aug 5 04:41:57 2025

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