Atomistry » Zinc » PDB 6f07-6f98 » 6f5r
Atomistry »
  Zinc »
    PDB 6f07-6f98 »
      6f5r »

Zinc in PDB 6f5r: Crystal Structure of KDM4D with GF028 Ligand

Protein crystallography data

The structure of Crystal Structure of KDM4D with GF028 Ligand, PDB code: 6f5r was solved by P.H.Malecki, A.Link, M.S.Weiss, U.Heinemann, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.41 / 1.61
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 72.149, 72.149, 152.392, 90.00, 90.00, 90.00
R / Rfree (%) 16.7 / 19.2

Other elements in 6f5r:

The structure of Crystal Structure of KDM4D with GF028 Ligand also contains other interesting chemical elements:

Nickel (Ni) 1 atom
Chlorine (Cl) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of KDM4D with GF028 Ligand (pdb code 6f5r). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the Crystal Structure of KDM4D with GF028 Ligand, PDB code: 6f5r:

Zinc binding site 1 out of 1 in 6f5r

Go back to Zinc Binding Sites List in 6f5r
Zinc binding site 1 out of 1 in the Crystal Structure of KDM4D with GF028 Ligand


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of KDM4D with GF028 Ligand within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn401

b:31.8
occ:1.00
NE2 A:HIS244 2.2 30.7 1.0
SG A:CYS238 2.2 33.3 1.0
SG A:CYS312 2.3 36.2 1.0
SG A:CYS310 2.4 35.4 1.0
CE1 A:HIS244 3.1 36.5 1.0
CB A:CYS238 3.2 25.9 1.0
CD2 A:HIS244 3.2 28.0 1.0
CB A:CYS310 3.5 33.8 1.0
CB A:CYS312 3.5 45.1 1.0
N A:CYS312 3.6 50.4 1.0
N A:SER311 3.9 54.9 1.0
CA A:CYS310 4.0 34.4 1.0
CA A:CYS312 4.1 38.7 1.0
C A:CYS310 4.2 53.9 1.0
ND1 A:HIS244 4.2 28.8 1.0
N A:GLU314 4.3 51.0 1.0
CB A:GLU314 4.3 40.0 1.0
CG A:HIS244 4.4 28.4 1.0
N A:GLY313 4.4 44.7 1.0
C A:CYS312 4.5 41.0 1.0
CA A:CYS238 4.6 27.9 1.0
C A:SER311 4.7 60.0 1.0
N A:ALA315 4.8 41.2 1.0
CA A:PHE241 4.8 25.5 1.0
O A:ALA240 4.8 28.2 1.0
CA A:GLU314 4.9 46.4 1.0
CA A:SER311 4.9 59.4 1.0
O A:HOH779 4.9 48.7 1.0
CG A:GLU314 5.0 61.3 1.0

Reference:

P.H.Malecki, A.Link, M.S.Weiss, U.Heinemann. Crystal Structure of KDM4D with GF028 Ligand To Be Published.
Page generated: Mon Oct 28 20:43:24 2024

Last articles

Zn in 9MJ5
Zn in 9HNW
Zn in 9G0L
Zn in 9FNE
Zn in 9DZN
Zn in 9E0I
Zn in 9D32
Zn in 9DAK
Zn in 8ZXC
Zn in 8ZUF
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy