Atomistry » Iron » PDB 6f0b-6fl2 » 6f6d
Atomistry »
  Iron »
    PDB 6f0b-6fl2 »
      6f6d »

Iron in PDB 6f6d: The Catalytic Domain of KDM6B in Complex with H3(17-33)K18IA21M Peptide

Protein crystallography data

The structure of The Catalytic Domain of KDM6B in Complex with H3(17-33)K18IA21M Peptide, PDB code: 6f6d was solved by S.E.Jones, L.Olsen, M.Gajhede, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 57.50 / 1.82
Space group P 41 21 2
Cell size a, b, c (Å), α, β, γ (°) 68.480, 68.480, 230.000, 90.00, 90.00, 90.00
R / Rfree (%) 16.5 / 21.4

Other elements in 6f6d:

The structure of The Catalytic Domain of KDM6B in Complex with H3(17-33)K18IA21M Peptide also contains other interesting chemical elements:

Zinc (Zn) 1 atom

Iron Binding Sites:

The binding sites of Iron atom in the The Catalytic Domain of KDM6B in Complex with H3(17-33)K18IA21M Peptide (pdb code 6f6d). 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 The Catalytic Domain of KDM6B in Complex with H3(17-33)K18IA21M Peptide, PDB code: 6f6d:

Iron binding site 1 out of 1 in 6f6d

Go back to Iron Binding Sites List in 6f6d
Iron binding site 1 out of 1 in the The Catalytic Domain of KDM6B in Complex with H3(17-33)K18IA21M Peptide


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of The Catalytic Domain of KDM6B in Complex with H3(17-33)K18IA21M Peptide within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe1701

b:23.9
occ:1.00
OE2 A:GLU1392 2.0 23.6 1.0
NE2 A:HIS1470 2.1 20.4 1.0
O2 A:AKG1703 2.1 23.4 1.0
NE2 A:HIS1390 2.2 19.6 1.0
O5 A:AKG1703 2.2 26.6 1.0
O A:HOH2098 2.3 28.8 1.0
C1 A:AKG1703 2.8 35.8 1.0
C2 A:AKG1703 2.8 32.3 1.0
CE1 A:HIS1470 3.0 21.9 1.0
CE1 A:HIS1390 3.0 22.1 1.0
CD A:GLU1392 3.1 21.7 1.0
HE1 A:HIS1470 3.1 26.3 1.0
HE1 A:HIS1390 3.1 26.5 1.0
CD2 A:HIS1470 3.2 20.0 1.0
CD2 A:HIS1390 3.2 25.1 1.0
HD2 A:HIS1470 3.4 24.0 1.0
HD2 A:HIS1390 3.5 30.1 1.0
OE1 A:GLU1392 3.6 22.6 1.0
HG A:SER1398 3.8 36.2 1.0
O1 A:AKG1703 4.0 27.1 1.0
ND1 A:HIS1470 4.1 21.0 1.0
ND1 A:HIS1390 4.2 21.4 1.0
C3 A:AKG1703 4.2 41.2 1.0
CG A:HIS1470 4.3 18.7 1.0
HG2 A:GLU1392 4.3 22.4 1.0
CG A:GLU1392 4.3 18.7 1.0
O A:HOH2157 4.3 41.6 1.0
CG A:HIS1390 4.3 21.9 1.0
O A:HOH1815 4.4 37.9 1.0
H32 A:AKG1703 4.4 49.5 1.0
HB2 A:SER1398 4.5 30.6 1.0
OG A:SER1398 4.5 30.1 1.0
HG21 A:THR1387 4.6 29.2 1.0
HZ3 B:LYS27 4.6 48.6 1.0
HB3 A:SER1398 4.7 30.6 1.0
O A:HOH2146 4.7 42.4 1.0
H31 A:AKG1703 4.7 49.5 1.0
HG3 A:GLU1392 4.8 22.4 1.0
HD13 A:ILE1464 4.8 31.8 1.0
CB A:SER1398 4.8 25.5 1.0
HA A:GLU1392 4.8 25.3 1.0
HD1 A:HIS1470 4.9 25.2 1.0
HZ3 A:TRP1410 4.9 28.5 1.0
H41 A:AKG1703 4.9 51.1 1.0
HD1 A:HIS1390 4.9 25.7 1.0
HG21 A:ILE1464 5.0 26.8 1.0
HG12 A:ILE1464 5.0 31.2 1.0

Reference:

S.E.Jones, L.Olsen, M.Gajhede. Structural Basis of Histone Demethylase KDM6B Histone 3 Lysine 27 Specificity. Biochemistry V. 57 585 2018.
ISSN: ISSN 1520-4995
PubMed: 29220567
DOI: 10.1021/ACS.BIOCHEM.7B01152
Page generated: Tue Aug 6 18:02:31 2024

Last articles

Fe in 2YXO
Fe in 2YRS
Fe in 2YXC
Fe in 2YNM
Fe in 2YVJ
Fe in 2YP1
Fe in 2YU2
Fe in 2YU1
Fe in 2YQB
Fe in 2YOO
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy