Atomistry » Zinc » PDB 5fi5-5fpa » 5fjk
Atomistry »
  Zinc »
    PDB 5fi5-5fpa »
      5fjk »

Zinc in PDB 5fjk: Crystal Structure of Human JMJD2C Catalytic Domain in Complex 6-Ethyl-5-Methyl-7-Oxo-4,7-Dihydropyrazolo(1,5-A) Pyrimidine-3-Carbonitrile

Protein crystallography data

The structure of Crystal Structure of Human JMJD2C Catalytic Domain in Complex 6-Ethyl-5-Methyl-7-Oxo-4,7-Dihydropyrazolo(1,5-A) Pyrimidine-3-Carbonitrile, PDB code: 5fjk was solved by V.Cecatiello, S.Pasqualato, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 53.774 / 1.66
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 89.900, 91.270, 98.990, 90.00, 90.00, 90.00
R / Rfree (%) 15.92 / 19.74

Other elements in 5fjk:

The structure of Crystal Structure of Human JMJD2C Catalytic Domain in Complex 6-Ethyl-5-Methyl-7-Oxo-4,7-Dihydropyrazolo(1,5-A) Pyrimidine-3-Carbonitrile also contains other interesting chemical elements:

Nickel (Ni) 1 atom
Chlorine (Cl) 4 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Human JMJD2C Catalytic Domain in Complex 6-Ethyl-5-Methyl-7-Oxo-4,7-Dihydropyrazolo(1,5-A) Pyrimidine-3-Carbonitrile (pdb code 5fjk). 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 Human JMJD2C Catalytic Domain in Complex 6-Ethyl-5-Methyl-7-Oxo-4,7-Dihydropyrazolo(1,5-A) Pyrimidine-3-Carbonitrile, PDB code: 5fjk:

Zinc binding site 1 out of 1 in 5fjk

Go back to Zinc Binding Sites List in 5fjk
Zinc binding site 1 out of 1 in the Crystal Structure of Human JMJD2C Catalytic Domain in Complex 6-Ethyl-5-Methyl-7-Oxo-4,7-Dihydropyrazolo(1,5-A) Pyrimidine-3-Carbonitrile


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 Human JMJD2C Catalytic Domain in Complex 6-Ethyl-5-Methyl-7-Oxo-4,7-Dihydropyrazolo(1,5-A) Pyrimidine-3-Carbonitrile within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1348

b:29.1
occ:1.00
NE2 A:HIS242 2.1 29.4 1.0
SG A:CYS236 2.2 32.9 1.0
SG A:CYS310 2.2 67.3 1.0
SG A:CYS308 2.2 56.2 1.0
CD2 A:HIS242 3.1 29.1 1.0
CE1 A:HIS242 3.1 34.2 1.0
CB A:CYS236 3.2 31.8 1.0
CB A:CYS308 3.5 55.1 1.0
N A:CYS310 3.6 84.0 1.0
CB A:CYS310 3.7 82.2 1.0
N A:THR309 3.9 77.1 1.0
CA A:CYS308 4.0 48.7 1.0
C A:CYS308 4.1 65.1 1.0
OG1 A:THR309 4.2 94.9 1.0
CA A:CYS310 4.2 85.4 1.0
ND1 A:HIS242 4.2 28.7 1.0
CG A:HIS242 4.2 28.2 1.0
N A:ARG311 4.5 78.3 1.0
CA A:CYS236 4.5 30.6 1.0
CG A:ARG311 4.6 85.1 1.0
C A:THR309 4.6 88.5 1.0
CD A:ARG311 4.7 85.1 1.0
O A:ALA238 4.7 24.3 1.0
CA A:THR309 4.8 83.5 1.0
C A:CYS310 4.8 89.5 1.0
CA A:PHE239 4.9 25.9 1.0
C A:ALA238 4.9 23.6 1.0
O A:CYS308 4.9 69.8 1.0
CE A:MET314 4.9 90.9 1.0

Reference:

V.Cecatiello, S.Pasqualato. Crystal Structures of Human JMJD2C Catalytic Domain Bound to Inhibitors To Be Published.
Page generated: Wed Dec 16 06:14:25 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy