Atomistry » Zinc » PDB 4bis-4bu9 » 4bis
Atomistry »
  Zinc »
    PDB 4bis-4bu9 »
      4bis »

Zinc in PDB 4bis: JMJD2A Complexed with 8-Hydroxyquinoline-4-Carboxylic Acid

Protein crystallography data

The structure of JMJD2A Complexed with 8-Hydroxyquinoline-4-Carboxylic Acid, PDB code: 4bis was solved by R.Chowdhury, C.Thinnes, C.J.Schofield, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 60.187 / 2.49
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 100.690, 150.150, 57.450, 90.00, 90.00, 90.00
R / Rfree (%) 19.25 / 22.44

Other elements in 4bis:

The structure of JMJD2A Complexed with 8-Hydroxyquinoline-4-Carboxylic Acid also contains other interesting chemical elements:

Nickel (Ni) 2 atoms
Chlorine (Cl) 2 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the JMJD2A Complexed with 8-Hydroxyquinoline-4-Carboxylic Acid (pdb code 4bis). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the JMJD2A Complexed with 8-Hydroxyquinoline-4-Carboxylic Acid, PDB code: 4bis:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 4bis

Go back to Zinc Binding Sites List in 4bis
Zinc binding site 1 out of 2 in the JMJD2A Complexed with 8-Hydroxyquinoline-4-Carboxylic Acid


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of JMJD2A Complexed with 8-Hydroxyquinoline-4-Carboxylic Acid within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn502

b:31.4
occ:1.00
NE2 A:HIS240 2.2 32.0 1.0
SG A:CYS306 2.3 34.5 1.0
SG A:CYS234 2.3 34.5 1.0
SG A:CYS308 2.4 41.0 1.0
CE1 A:HIS240 3.1 31.0 1.0
CD2 A:HIS240 3.2 30.9 1.0
CB A:CYS234 3.3 37.4 1.0
CB A:CYS306 3.5 34.1 1.0
N A:CYS308 3.6 44.4 1.0
CB A:CYS308 3.7 45.6 1.0
CA A:CYS306 4.0 35.8 1.0
N A:SER307 4.0 38.8 1.0
CA A:CYS308 4.1 46.0 1.0
ND1 A:HIS240 4.3 30.6 1.0
C A:CYS306 4.3 36.8 1.0
CG A:HIS240 4.3 29.8 1.0
N A:ARG309 4.4 51.6 1.0
C A:CYS308 4.4 48.4 1.0
CG A:ARG309 4.4 53.6 1.0
CA A:CYS234 4.7 38.5 1.0
C A:SER307 4.7 43.1 1.0
O A:ALA236 4.8 30.0 1.0
CA A:PHE237 4.8 27.9 1.0
CB A:ARG309 4.9 53.2 1.0
CD A:ARG309 4.9 53.7 1.0
CA A:SER307 4.9 41.4 1.0
NE A:ARG309 4.9 55.9 1.0

Zinc binding site 2 out of 2 in 4bis

Go back to Zinc Binding Sites List in 4bis
Zinc binding site 2 out of 2 in the JMJD2A Complexed with 8-Hydroxyquinoline-4-Carboxylic Acid


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of JMJD2A Complexed with 8-Hydroxyquinoline-4-Carboxylic Acid within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn502

b:35.1
occ:1.00
NE2 B:HIS240 2.3 33.5 1.0
SG B:CYS234 2.3 43.4 1.0
SG B:CYS308 2.4 42.4 1.0
SG B:CYS306 2.4 36.0 1.0
CD2 B:HIS240 3.2 32.5 1.0
CB B:CYS234 3.3 44.4 1.0
CE1 B:HIS240 3.3 34.1 1.0
CB B:CYS306 3.4 39.7 1.0
N B:CYS308 3.5 51.5 1.0
CB B:CYS308 3.6 48.9 1.0
N B:SER307 3.8 46.4 1.0
N B:ARG309 3.8 53.2 1.0
CA B:CYS306 3.9 41.2 1.0
CA B:CYS308 4.0 50.9 1.0
C B:CYS306 4.1 44.0 1.0
CG B:ARG309 4.2 56.9 1.0
C B:CYS308 4.3 51.7 1.0
CG B:HIS240 4.4 32.7 1.0
ND1 B:HIS240 4.4 33.2 1.0
C B:SER307 4.5 51.4 1.0
CB B:ARG309 4.6 55.2 1.0
CA B:CYS234 4.7 46.4 1.0
O B:ALA236 4.7 36.5 1.0
CA B:SER307 4.7 49.8 1.0
CD B:ARG309 4.8 57.7 1.0
CA B:PHE237 4.8 33.5 1.0
CA B:ARG309 4.8 55.6 1.0

Reference:

R.J.Hopkinson, A.Tumber, C.Yapp, R.Chowdhury, W.Aik, K.H.Che, X.S.Li, J.B.L.Kristensen, O.N.F.King, M.C.Chan, K.K.Yeoh, H.Choi, L.J.Walport, C.C.Thinnes, J.T.Bush, C.Lejeune, A.M.Rydzik, N.R.Rose, E.A.Bagg, M.A.Mcdonough, T.J.Krojer, W.W.Yue, S.S.Ng, L.Olsen, P.E.Brennan, U.Oppermann, S. Muller, R.J.Klose, P.J.Ratcliffe, C.J.Schofield, A.Kawamura. 8-Hydroxyquinoline-5-Carboxylic Acid Is A Broad Spectrum 2-Oxoglutarate Oxygenase Inhibitor Which Causes Iron Translocation Chem.Rev. V. 4 3110 2013.
ISSN: ISSN 2041-6520
DOI: 10.1039/C3SC51122G
Page generated: Sat Oct 26 19:49:39 2024

Last articles

Zn in 7WQG
Zn in 7WQL
Zn in 7WNH
Zn in 7WN8
Zn in 7WSG
Zn in 7WSH
Zn in 7WNU
Zn in 7WSF
Zn in 7WSE
Zn in 7WRH
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy