Atomistry » Zinc » PDB 5fpb-5fvt » 5fuv
Atomistry »
  Zinc »
    PDB 5fpb-5fvt »
      5fuv »

Zinc in PDB 5fuv: Catalytic Domain of Thymidine Kinase From Trypanosoma Brucei with Dthd

Enzymatic activity of Catalytic Domain of Thymidine Kinase From Trypanosoma Brucei with Dthd

All present enzymatic activity of Catalytic Domain of Thymidine Kinase From Trypanosoma Brucei with Dthd:
2.7.1.21;

Protein crystallography data

The structure of Catalytic Domain of Thymidine Kinase From Trypanosoma Brucei with Dthd, PDB code: 5fuv was solved by J.Timm, M.Valente, V.Castillo-Acosta, T.Balzarini, J.E.Nettleship, H.Rada, K.S.Wilson, D.Gonzalez-Pacanowska, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 114.68 / 2.30
Space group P 43 2 2
Cell size a, b, c (Å), α, β, γ (°) 114.680, 114.680, 105.600, 90.00, 90.00, 90.00
R / Rfree (%) 17.869 / 20.745

Zinc Binding Sites:

The binding sites of Zinc atom in the Catalytic Domain of Thymidine Kinase From Trypanosoma Brucei with Dthd (pdb code 5fuv). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Catalytic Domain of Thymidine Kinase From Trypanosoma Brucei with Dthd, PDB code: 5fuv:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 5fuv

Go back to Zinc Binding Sites List in 5fuv
Zinc binding site 1 out of 2 in the Catalytic Domain of Thymidine Kinase From Trypanosoma Brucei with Dthd


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Catalytic Domain of Thymidine Kinase From Trypanosoma Brucei with Dthd within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1389

b:51.8
occ:1.00
SG A:CYS374 2.3 52.0 1.0
SG A:CYS344 2.3 53.7 1.0
SG A:CYS377 2.3 54.3 1.0
SG A:CYS341 2.3 49.2 1.0
CB A:CYS341 3.2 46.8 1.0
CB A:CYS377 3.2 57.0 1.0
CB A:CYS344 3.2 49.6 1.0
CB A:CYS374 3.4 50.0 1.0
N A:CYS344 3.8 48.8 1.0
N A:CYS374 4.0 47.3 1.0
CA A:CYS344 4.1 49.2 1.0
CA A:CYS374 4.3 48.4 1.0
N A:CYS377 4.3 59.9 1.0
CA A:CYS377 4.4 59.1 1.0
CA A:CYS341 4.6 46.1 1.0
CB A:GLU343 4.7 59.5 1.0
CG A:ARG347 4.8 65.1 1.0
CB A:ARG347 4.8 61.9 1.0
C A:GLU343 4.9 51.6 1.0
C A:CYS374 4.9 48.0 1.0
C A:CYS344 4.9 57.3 1.0
N A:HIS345 5.0 48.6 1.0

Zinc binding site 2 out of 2 in 5fuv

Go back to Zinc Binding Sites List in 5fuv
Zinc binding site 2 out of 2 in the Catalytic Domain of Thymidine Kinase From Trypanosoma Brucei with Dthd


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Catalytic Domain of Thymidine Kinase From Trypanosoma Brucei with Dthd within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn1386

b:60.4
occ:1.00
SG B:CYS377 2.2 59.8 1.0
SG B:CYS344 2.3 60.8 1.0
SG B:CYS341 2.3 58.4 1.0
SG B:CYS374 2.3 61.9 1.0
CB B:CYS341 3.2 53.8 1.0
CB B:CYS377 3.2 54.6 1.0
CB B:CYS344 3.2 71.8 1.0
CB B:CYS374 3.5 50.1 1.0
N B:CYS344 3.7 63.8 1.0
N B:CYS374 4.0 50.1 1.0
CA B:CYS344 4.1 60.5 1.0
N B:CYS377 4.3 58.4 1.0
CA B:CYS377 4.3 58.2 1.0
CA B:CYS374 4.3 49.4 1.0
CA B:CYS341 4.6 54.1 1.0
CB B:GLU343 4.6 64.2 1.0
CG B:ARG347 4.8 79.5 1.0
C B:GLU343 4.8 73.1 1.0
CB B:ARG347 4.9 72.6 1.0
C B:CYS344 4.9 59.1 1.0
C B:CYS374 4.9 50.2 1.0
N B:HIS345 5.0 58.4 1.0

Reference:

M.Valente, J.Timm, V.M.Castillo-Acosta, L.M.Ruiz-Perez, T.Balzarini, J.E.Nettleship, L.E.Bird, H.Rada, K.S.Wilson, D.Gonzalez-Pacanowska. Cell Cycle Regulation and Novel Structural Features of Thymidine Kinase, An Essential Enzyme in Trypanosoma Brucei. Mol.Microbiol. V. 102 365 2016.
ISSN: ISSN 0950-382X
PubMed: 27426054
DOI: 10.1111/MMI.13467
Page generated: Sun Oct 27 16:31:48 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