Atomistry » Sodium » PDB 4iic-4j0n » 4iqu
Atomistry »
  Sodium »
    PDB 4iic-4j0n »
      4iqu »

Sodium in PDB 4iqu: Tdt Core in Complex with Inhibitor (2Z,5E)-6-[4-(4-Fluorobenzoyl)-1H- Pyrrol-2-Yl]-2-Hydroxy-4-Oxohexa-2,5-Dienoic Acid

Enzymatic activity of Tdt Core in Complex with Inhibitor (2Z,5E)-6-[4-(4-Fluorobenzoyl)-1H- Pyrrol-2-Yl]-2-Hydroxy-4-Oxohexa-2,5-Dienoic Acid

All present enzymatic activity of Tdt Core in Complex with Inhibitor (2Z,5E)-6-[4-(4-Fluorobenzoyl)-1H- Pyrrol-2-Yl]-2-Hydroxy-4-Oxohexa-2,5-Dienoic Acid:
2.7.7.31;

Protein crystallography data

The structure of Tdt Core in Complex with Inhibitor (2Z,5E)-6-[4-(4-Fluorobenzoyl)-1H- Pyrrol-2-Yl]-2-Hydroxy-4-Oxohexa-2,5-Dienoic Acid, PDB code: 4iqu was solved by J.Gouge, M.Delarue, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 39.76 / 2.40
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 46.913, 84.804, 114.493, 90.00, 90.00, 90.00
R / Rfree (%) 18.5 / 22.5

Other elements in 4iqu:

The structure of Tdt Core in Complex with Inhibitor (2Z,5E)-6-[4-(4-Fluorobenzoyl)-1H- Pyrrol-2-Yl]-2-Hydroxy-4-Oxohexa-2,5-Dienoic Acid also contains other interesting chemical elements:

Fluorine (F) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Tdt Core in Complex with Inhibitor (2Z,5E)-6-[4-(4-Fluorobenzoyl)-1H- Pyrrol-2-Yl]-2-Hydroxy-4-Oxohexa-2,5-Dienoic Acid (pdb code 4iqu). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Tdt Core in Complex with Inhibitor (2Z,5E)-6-[4-(4-Fluorobenzoyl)-1H- Pyrrol-2-Yl]-2-Hydroxy-4-Oxohexa-2,5-Dienoic Acid, PDB code: 4iqu:

Sodium binding site 1 out of 1 in 4iqu

Go back to Sodium Binding Sites List in 4iqu
Sodium binding site 1 out of 1 in the Tdt Core in Complex with Inhibitor (2Z,5E)-6-[4-(4-Fluorobenzoyl)-1H- Pyrrol-2-Yl]-2-Hydroxy-4-Oxohexa-2,5-Dienoic Acid


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Tdt Core in Complex with Inhibitor (2Z,5E)-6-[4-(4-Fluorobenzoyl)-1H- Pyrrol-2-Yl]-2-Hydroxy-4-Oxohexa-2,5-Dienoic Acid within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na601

b:51.6
occ:1.00
 O A:THR253 2.4 36.3 1.0
O A:VAL258 2.7 35.7 1.0
O A:HOH781 2.8 51.0 1.0
O A:VAL255 2.8 31.7 1.0
O A:HOH921 2.9 41.4 1.0
C A:THR253 3.4 36.3 1.0
C A:VAL258 3.7 36.9 1.0
C A:VAL255 3.8 31.4 1.0
CA A:THR253 3.9 34.0 1.0
N A:VAL258 3.9 32.5 1.0
CB A:THR253 4.2 38.1 1.0
N A:GLY257 4.3 29.4 1.0
CA A:VAL258 4.3 31.9 1.0
CA A:PHE256 4.4 27.5 1.0
N A:PHE256 4.5 28.2 1.0
N A:VAL255 4.5 30.1 1.0
N A:SER254 4.5 31.2 1.0
C A:PHE256 4.7 31.9 1.0
CB A:VAL258 4.7 34.1 1.0
C A:SER254 4.8 34.8 1.0
N A:GLY259 4.8 36.5 1.0
CA A:VAL255 4.8 28.0 1.0
O A:HOH786 4.9 48.4 1.0
C A:GLY257 4.9 34.1 1.0
O A:HOH948 5.0 60.4 1.0
CA A:SER254 5.0 31.0 1.0

Reference:

R.Costi, G.Cuzzucoli Crucitti, L.Pescatori, A.Messore, L.Scipione, S.Tortorella, A.Amoroso, E.Crespan, P.Campiglia, B.Maresca, A.Porta, I.Granata, E.Novellino, J.Gouge, M.Delarue, G.Maga, R.Di Santo. New Nucleotide-Competitive Non-Nucleoside Inhibitors of Terminal Deoxynucleotidyl Transferase: Discovery, Characterization, and Crystal Structure in Complex with the Target. J.Med.Chem. V. 56 7431 2013.
ISSN: ISSN 0022-2623
PubMed: 23968551
DOI: 10.1021/JM4010187
Page generated: Mon Oct 7 16:05:33 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy