Atomistry » Calcium » PDB 2qwd-2rex » 2r8o
Atomistry »
  Calcium »
    PDB 2qwd-2rex »
      2r8o »

Calcium in PDB 2r8o: Transketolase From E. Coli in Complex with Substrate D-Xylulose-5- Phosphate

Enzymatic activity of Transketolase From E. Coli in Complex with Substrate D-Xylulose-5- Phosphate

All present enzymatic activity of Transketolase From E. Coli in Complex with Substrate D-Xylulose-5- Phosphate:
2.2.1.1;

Protein crystallography data

The structure of Transketolase From E. Coli in Complex with Substrate D-Xylulose-5- Phosphate, PDB code: 2r8o was solved by G.Wille, P.Asztalos, M.S.Weiss, K.Tittmann, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 27.14 / 1.47
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 90.138, 101.951, 133.258, 90.00, 90.00, 90.00
R / Rfree (%) 15 / 16.4

Calcium Binding Sites:

The binding sites of Calcium atom in the Transketolase From E. Coli in Complex with Substrate D-Xylulose-5- Phosphate (pdb code 2r8o). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Transketolase From E. Coli in Complex with Substrate D-Xylulose-5- Phosphate, PDB code: 2r8o:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in 2r8o

Go back to Calcium Binding Sites List in 2r8o
Calcium binding site 1 out of 2 in the Transketolase From E. Coli in Complex with Substrate D-Xylulose-5- Phosphate


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Transketolase From E. Coli in Complex with Substrate D-Xylulose-5- Phosphate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca670

b:4.8
occ:1.00
O1A A:T5X671 2.2 6.9 1.0
O A:ILE187 2.3 5.5 1.0
O2B A:T5X671 2.3 7.1 1.0
OD2 A:ASP155 2.3 5.5 1.0
OD1 A:ASN185 2.4 5.0 1.0
O A:HOH680 2.4 4.9 1.0
CG A:ASN185 3.3 5.0 1.0
CG A:ASP155 3.4 5.3 1.0
C A:ILE187 3.5 5.2 1.0
PA A:T5X671 3.5 7.5 1.0
PB A:T5X671 3.5 8.0 1.0
ND2 A:ASN185 3.5 6.0 1.0
O3A A:T5X671 3.7 8.9 1.0
CB A:ASP155 3.8 4.7 1.0
N A:ILE187 4.0 5.0 1.0
O1B A:T5X671 4.1 13.4 1.0
N A:ASP155 4.1 4.6 1.0
CA A:ILE187 4.3 5.4 1.0
O7 A:T5X671 4.4 9.9 1.0
O A:HOH793 4.4 8.3 1.0
OD1 A:ASP155 4.4 5.8 1.0
N A:SER188 4.5 5.2 1.0
O A:ASP183 4.5 5.2 1.0
O2A A:T5X671 4.6 10.1 1.0
CA A:ASP155 4.6 4.6 1.0
O3B A:T5X671 4.6 12.3 1.0
CA A:SER188 4.7 5.2 1.0
CB A:ASN185 4.7 4.8 1.0
CB A:ILE187 4.7 5.5 1.0
N A:GLY186 4.8 4.3 1.0
N A:ASN185 4.9 5.1 1.0
C A:ASN185 5.0 4.8 1.0

Calcium binding site 2 out of 2 in 2r8o

Go back to Calcium Binding Sites List in 2r8o
Calcium binding site 2 out of 2 in the Transketolase From E. Coli in Complex with Substrate D-Xylulose-5- Phosphate


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Transketolase From E. Coli in Complex with Substrate D-Xylulose-5- Phosphate within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca670

b:5.0
occ:1.00
O1A B:T5X671 2.2 7.4 1.0
O2B B:T5X671 2.2 6.7 1.0
O B:ILE187 2.3 6.4 1.0
OD2 B:ASP155 2.3 6.3 1.0
OD1 B:ASN185 2.4 4.7 1.0
O B:HOH730 2.4 5.2 1.0
CG B:ASN185 3.3 5.2 1.0
CG B:ASP155 3.4 6.3 1.0
PA B:T5X671 3.5 7.9 1.0
PB B:T5X671 3.5 8.2 1.0
C B:ILE187 3.5 5.9 1.0
ND2 B:ASN185 3.5 5.9 1.0
O3A B:T5X671 3.7 9.0 1.0
CB B:ASP155 3.8 4.8 1.0
N B:ILE187 4.1 6.0 1.0
N B:ASP155 4.1 4.9 1.0
O1B B:T5X671 4.2 13.0 1.0
CA B:ILE187 4.3 6.5 1.0
O7 B:T5X671 4.4 10.2 1.0
O B:HOH763 4.4 8.6 1.0
OD1 B:ASP155 4.4 6.2 1.0
N B:SER188 4.5 5.7 1.0
O B:ASP183 4.5 6.1 1.0
O2A B:T5X671 4.6 10.5 1.0
CA B:ASP155 4.6 5.1 1.0
O3B B:T5X671 4.6 11.5 1.0
CA B:SER188 4.6 5.7 1.0
CB B:ASN185 4.7 5.4 1.0
CB B:ILE187 4.8 6.8 1.0
N B:GLY186 4.8 5.2 1.0
N B:ASN185 4.9 5.7 1.0

Reference:

P.Asztalos, C.Parthier, R.Golbik, M.Kleinschmidt, G.Hubner, M.S.Weiss, R.Friedemann, G.Wille, K.Tittmann. Strain and Near Attack Conformers in Enzymic Thiamin Catalysis: X-Ray Crystallographic Snapshots of Bacterial Transketolase in Covalent Complex with Donor Ketoses Xylulose 5-Phosphate and Fructose 6-Phosphate, and in Noncovalent Complex with Acceptor Aldose Ribose 5-Phosphate. Biochemistry V. 46 12037 2007.
ISSN: ISSN 0006-2960
PubMed: 17914867
DOI: 10.1021/BI700844M
Page generated: Sat Dec 12 03:51:48 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy