Atomistry » Nickel » PDB 6z8o-7err » 7eqv
Atomistry »
  Nickel »
    PDB 6z8o-7err »
      7eqv »

Nickel in PDB 7eqv: Crystal Structure of JMJD2A Complexed with 3,4-Dihydroxybenzoic Acid

Enzymatic activity of Crystal Structure of JMJD2A Complexed with 3,4-Dihydroxybenzoic Acid

All present enzymatic activity of Crystal Structure of JMJD2A Complexed with 3,4-Dihydroxybenzoic Acid:
1.14.11.66; 1.14.11.69;

Protein crystallography data

The structure of Crystal Structure of JMJD2A Complexed with 3,4-Dihydroxybenzoic Acid, PDB code: 7eqv was solved by W.-K.Fang, S.-M.Yang, W.-C.Wang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.00 / 2.60
Space group P 31 2 1
Cell size a, b, c (Å), α, β, γ (°) 149.396, 149.396, 62.175, 90, 90, 120
R / Rfree (%) 16.8 / 22.2

Other elements in 7eqv:

The structure of Crystal Structure of JMJD2A Complexed with 3,4-Dihydroxybenzoic Acid also contains other interesting chemical elements:

Zinc (Zn) 1 atom
Chlorine (Cl) 1 atom

Nickel Binding Sites:

The binding sites of Nickel atom in the Crystal Structure of JMJD2A Complexed with 3,4-Dihydroxybenzoic Acid (pdb code 7eqv). This binding sites where shown within 5.0 Angstroms radius around Nickel atom.
In total only one binding site of Nickel was determined in the Crystal Structure of JMJD2A Complexed with 3,4-Dihydroxybenzoic Acid, PDB code: 7eqv:

Nickel binding site 1 out of 1 in 7eqv

Go back to Nickel Binding Sites List in 7eqv
Nickel binding site 1 out of 1 in the Crystal Structure of JMJD2A Complexed with 3,4-Dihydroxybenzoic Acid


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 1 of Crystal Structure of JMJD2A Complexed with 3,4-Dihydroxybenzoic Acid within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ni402

b:58.4
occ:1.00
 O4 A:DHB401 1.7 72.8 1.0
OE2 A:GLU190 1.9 44.4 1.0
NE2 A:HIS188 2.3 34.5 1.0
O3 A:DHB401 2.4 60.6 1.0
C4 A:DHB401 2.7 76.8 1.0
O A:HOH507 2.8 43.5 1.0
CD A:GLU190 2.8 35.0 1.0
NE2 A:HIS276 2.9 20.4 1.0
C3 A:DHB401 3.0 69.0 1.0
OE1 A:GLU190 3.1 33.7 1.0
CE1 A:HIS188 3.2 33.1 1.0
CD2 A:HIS188 3.3 33.9 1.0
CE1 A:HIS276 3.5 22.2 1.0
C5 A:DHB401 4.0 83.8 1.0
O A:HOH625 4.1 40.6 1.0
CD2 A:HIS276 4.1 22.3 1.0
CG A:GLU190 4.2 34.8 1.0
ND1 A:HIS188 4.3 32.4 1.0
C2 A:DHB401 4.4 74.7 1.0
CG A:HIS188 4.4 33.6 1.0
NZ A:LYS241 4.6 74.4 1.0
O A:HOH582 4.7 43.6 1.0
ND1 A:HIS276 4.7 18.9 1.0
OG A:SER196 4.9 33.5 1.0

Reference:

J.S.Liu, W.K.Fang, S.M.Yang, M.C.Wu, T.J.Chen, C.M.Chen, T.Y.Lin, K.L.Liu, C.M.Wu, Y.C.Chen, C.P.Chuu, L.Y.Wang, H.P.Hsieh, H.J.Kung, W.C.Wang. Natural Product Myricetin Is A Pan-KDM4 Inhibitor Which with Poly Lactic-Co-Glycolic Acid Formulation Effectively Targets Castration-Resistant Prostate Cancer. J.Biomed.Sci. V. 29 29 2022.
ISSN: ESSN 1423-0127
PubMed: 35534851
DOI: 10.1186/S12929-022-00812-3
Page generated: Thu Oct 10 09:10:53 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy