Atomistry » Calcium » PDB 4ae2-4aqe » 4aja
Atomistry »
  Calcium »
    PDB 4ae2-4aqe »
      4aja »

Calcium in PDB 4aja: 3D Structure of E. Coli Isocitrate Dehydrogenase in Complex with Isocitrate, Calcium(II) and Thionadp

Enzymatic activity of 3D Structure of E. Coli Isocitrate Dehydrogenase in Complex with Isocitrate, Calcium(II) and Thionadp

All present enzymatic activity of 3D Structure of E. Coli Isocitrate Dehydrogenase in Complex with Isocitrate, Calcium(II) and Thionadp:
1.1.1.42;

Protein crystallography data

The structure of 3D Structure of E. Coli Isocitrate Dehydrogenase in Complex with Isocitrate, Calcium(II) and Thionadp, PDB code: 4aja was solved by S.Goncalves, S.P.Miller, M.A.Carrondo, A.M.Dean, P.M.Matias, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 46.515 / 1.80
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 104.010, 104.010, 149.563, 90.00, 90.00, 90.00
R / Rfree (%) 18.33 / 20.4

Calcium Binding Sites:

The binding sites of Calcium atom in the 3D Structure of E. Coli Isocitrate Dehydrogenase in Complex with Isocitrate, Calcium(II) and Thionadp (pdb code 4aja). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total only one binding site of Calcium was determined in the 3D Structure of E. Coli Isocitrate Dehydrogenase in Complex with Isocitrate, Calcium(II) and Thionadp, PDB code: 4aja:

Calcium binding site 1 out of 1 in 4aja

Go back to Calcium Binding Sites List in 4aja
Calcium binding site 1 out of 1 in the 3D Structure of E. Coli Isocitrate Dehydrogenase in Complex with Isocitrate, Calcium(II) and Thionadp


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of 3D Structure of E. Coli Isocitrate Dehydrogenase in Complex with Isocitrate, Calcium(II) and Thionadp within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca503

b:24.8
occ:1.00
 OD1 A:ASP307 2.4 23.4 1.0
O2 A:ICT502 2.5 26.9 1.0
OD2 A:ASP311 2.5 32.9 1.0
O7 A:ICT502 2.5 26.8 1.0
O A:HOH2411 2.6 31.4 1.0
O A:HOH2208 2.6 24.9 1.0
C1 A:ICT502 3.3 33.6 1.0
CG A:ASP311 3.3 26.5 1.0
C2 A:ICT502 3.5 28.6 1.0
CG A:ASP307 3.5 24.3 1.0
OD1 A:ASP311 3.6 32.6 1.0
O A:ASP307 4.1 19.9 1.0
OD2 A:ASP307 4.1 21.7 1.0
NH1 A:ARG129 4.4 29.4 1.0
O A:HOH2500 4.4 36.0 1.0
O1 A:ICT502 4.5 29.3 1.0
C6 A:ICT502 4.5 26.6 1.0
O A:HOH2424 4.5 33.4 1.0
C3 A:ICT502 4.6 27.7 1.0
CB A:ASP311 4.6 19.2 1.0
CA A:ASP307 4.7 17.7 1.0
CB A:ASP307 4.7 19.1 1.0
C A:ASP307 4.7 20.5 1.0
O6 A:ICT502 4.7 26.9 1.0
O5 A:ICT502 4.7 27.2 1.0
NH1 A:ARG153 4.9 23.5 1.0
O A:HOH2209 4.9 27.1 1.0

Reference:

S.Goncalves, S.P.Miller, M.A.Carrondo, A.M.Dean, P.M.Matias. Induced Fit and the Catalytic Mechanism of Isocitrate Dehydrogenase. Biochemistry V. 51 7098 2012.
ISSN: ISSN 0006-2960
PubMed: 22891681
DOI: 10.1021/BI300483W
Page generated: Sat Jul 13 22:05:03 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