Calcium in PDB 6qud: 2-Deoxy-Galactose Reaction Intermediate of A Truncated Beta- Galactosidase III From Bifidobacterium Bifidum

Enzymatic activity of 2-Deoxy-Galactose Reaction Intermediate of A Truncated Beta- Galactosidase III From Bifidobacterium Bifidum

All present enzymatic activity of 2-Deoxy-Galactose Reaction Intermediate of A Truncated Beta- Galactosidase III From Bifidobacterium Bifidum:
3.2.1.23;

Protein crystallography data

The structure of 2-Deoxy-Galactose Reaction Intermediate of A Truncated Beta- Galactosidase III From Bifidobacterium Bifidum, PDB code: 6qud was solved by S.S.Thirup, J.A.Nielsen, J.L.Andersen, H.Alsarraf, M.Blaise, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 41.81 / 2.10
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 70.210, 53.920, 112.620, 90.00, 106.59, 90.00
R / Rfree (%) 16.5 / 20.9

Calcium Binding Sites:

The binding sites of Calcium atom in the 2-Deoxy-Galactose Reaction Intermediate of A Truncated Beta- Galactosidase III From Bifidobacterium Bifidum (pdb code 6qud). 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 2-Deoxy-Galactose Reaction Intermediate of A Truncated Beta- Galactosidase III From Bifidobacterium Bifidum, PDB code: 6qud:

Calcium binding site 1 out of 1 in 6qud

Go back to Calcium Binding Sites List in 6qud
Calcium binding site 1 out of 1 in the 2-Deoxy-Galactose Reaction Intermediate of A Truncated Beta- Galactosidase III From Bifidobacterium Bifidum


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of 2-Deoxy-Galactose Reaction Intermediate of A Truncated Beta- Galactosidase III From Bifidobacterium Bifidum within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca2002

b:39.4
occ:1.00
 O A:VAL678 2.4 28.7 1.0
O A:ASN675 2.4 22.9 1.0
OD2 A:ASP707 2.4 26.1 1.0
O A:HOH2265 2.5 23.3 1.0
O A:HOH2647 2.5 25.4 1.0
O A:HOH2725 2.5 37.1 1.0
CG A:ASP707 3.3 28.0 1.0
C A:ASN675 3.5 22.5 1.0
C A:VAL678 3.6 26.3 1.0
CA A:ASP676 3.8 30.0 1.0
CB A:ASP707 3.8 25.3 1.0
N A:ASP676 4.1 26.1 1.0
O A:HOH2423 4.2 36.1 1.0
OD1 A:ASP707 4.2 29.9 1.0
ND1 A:HIS679 4.3 37.6 1.0
C A:ASP676 4.3 29.8 1.0
CA A:HIS679 4.3 27.1 1.0
N A:HIS679 4.4 27.3 1.0
N A:VAL678 4.4 29.4 1.0
O A:GLN671 4.5 20.5 1.0
OD1 A:ASP676 4.5 41.8 1.0
CA A:VAL678 4.6 29.3 1.0
CA A:ASN675 4.7 22.1 1.0
O A:ASP676 4.7 31.3 1.0
N A:ASP677 4.8 28.8 1.0
O A:SER672 4.8 22.2 1.0
CG2 A:VAL678 4.9 24.6 1.0

Reference:

J.A.Nielsen, J.L.Andersen, H.Alsarraf, M.Blaise, S.S.Thirup, M.K.Larsen, J.F.Cramer. Truncated Beta-Galactosidase III From Bifidobacterium Bifidum To Be Published.
Page generated: Sat Dec 12 07:28:08 2020

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