Atomistry » Zinc » PDB 5fvw-5fz7 » 5fy4
Atomistry »
  Zinc »
    PDB 5fvw-5fz7 »
      5fy4 »

Zinc in PDB 5fy4: Crystal Structure of the Catalytic Domain of Human JARID1B in Complex with Succinate

Protein crystallography data

The structure of Crystal Structure of the Catalytic Domain of Human JARID1B in Complex with Succinate, PDB code: 5fy4 was solved by R.Nowak, V.Srikannathasan, C.Johansson, C.Gileadi, K.Kupinska, C.Strain-Damerell, A.Szykowska, F.Von Delft, N.A.Burgess-Brown, C.H.Arrowsmith, C.Bountra, A.M.Edwards, U.Oppermann, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 71.07 / 2.10
Space group P 65 2 2
Cell size a, b, c (Å), α, β, γ (°) 142.140, 142.140, 152.100, 90.00, 90.00, 120.00
R / Rfree (%) 19.3 / 19.3

Other elements in 5fy4:

The structure of Crystal Structure of the Catalytic Domain of Human JARID1B in Complex with Succinate also contains other interesting chemical elements:

Manganese (Mn) 5 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of the Catalytic Domain of Human JARID1B in Complex with Succinate (pdb code 5fy4). 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 the Catalytic Domain of Human JARID1B in Complex with Succinate, PDB code: 5fy4:

Zinc binding site 1 out of 1 in 5fy4

Go back to Zinc Binding Sites List in 5fy4
Zinc binding site 1 out of 1 in the Crystal Structure of the Catalytic Domain of Human JARID1B in Complex with Succinate


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 the Catalytic Domain of Human JARID1B in Complex with Succinate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1754

b:42.1
occ:1.00
ND1 A:HIS718 2.1 54.3 1.0
SG A:CYS692 2.2 39.7 1.0
SG A:CYS715 2.3 41.8 1.0
SG A:CYS695 2.4 45.5 1.0
CE1 A:HIS718 2.9 56.6 1.0
CB A:CYS692 3.1 39.3 1.0
CG A:HIS718 3.2 52.2 1.0
CB A:CYS695 3.4 44.1 1.0
CB A:CYS715 3.5 38.5 1.0
CB A:HIS718 3.7 42.2 1.0
N A:CYS695 3.7 49.6 1.0
N A:CYS715 3.8 38.2 1.0
NE2 A:HIS718 4.1 62.1 1.0
CA A:CYS695 4.1 45.4 1.0
CA A:CYS715 4.2 39.3 1.0
CD2 A:HIS718 4.2 50.9 1.0
CG2 A:THR697 4.4 42.2 1.0
CB A:LYS694 4.5 43.7 1.0
CA A:CYS692 4.5 40.4 1.0
N A:HIS718 4.5 42.7 1.0
CD A:ARG619 4.6 51.8 1.0
O A:CYS715 4.7 36.9 1.0
C A:CYS715 4.7 35.7 1.0
CA A:HIS718 4.8 45.4 1.0
C A:LYS694 4.8 56.4 1.0
CB A:HIS717 4.8 41.3 1.0
C A:CYS695 4.9 43.2 1.0
C A:VAL714 4.9 42.4 1.0
CG A:ARG619 4.9 56.4 1.0
CG A:LYS694 5.0 55.9 1.0

Reference:

R.Nowak, V.Srikannathasan, C.Johansson, C.Gileadi, K.Kupinska, C.Strain-Damerell, A.Szykowska, F.Von Delft, N.A.Burgess-Brown, C.H.Arrowsmith, C.Bountra, A.M.Edwards, U.Oppermann. Crystal Structure of the Catalytic Domain of Human JARID1B in Complex with Succinate To Be Published.
Page generated: Sun Oct 27 16:37:03 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