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Calcium in PDB 4tvd: N-Terminally Truncated Dextransucrase Dsr-E From Leuconostoc Mesenteroides Nrrl B-1299 in Complex with D-Glucose

Enzymatic activity of N-Terminally Truncated Dextransucrase Dsr-E From Leuconostoc Mesenteroides Nrrl B-1299 in Complex with D-Glucose

All present enzymatic activity of N-Terminally Truncated Dextransucrase Dsr-E From Leuconostoc Mesenteroides Nrrl B-1299 in Complex with D-Glucose:
2.4.1.5;

Protein crystallography data

The structure of N-Terminally Truncated Dextransucrase Dsr-E From Leuconostoc Mesenteroides Nrrl B-1299 in Complex with D-Glucose, PDB code: 4tvd was solved by Y.Brison, M.Remaud-Simeon, L.Mourey, S.Tranier, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 47.70 / 2.30
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 67.770, 98.980, 181.910, 90.00, 90.00, 90.00
R / Rfree (%) 16.9 / 22.3

Other elements in 4tvd:

The structure of N-Terminally Truncated Dextransucrase Dsr-E From Leuconostoc Mesenteroides Nrrl B-1299 in Complex with D-Glucose also contains other interesting chemical elements:

Iodine (I) 5 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the N-Terminally Truncated Dextransucrase Dsr-E From Leuconostoc Mesenteroides Nrrl B-1299 in Complex with D-Glucose (pdb code 4tvd). 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 N-Terminally Truncated Dextransucrase Dsr-E From Leuconostoc Mesenteroides Nrrl B-1299 in Complex with D-Glucose, PDB code: 4tvd:

Calcium binding site 1 out of 1 in 4tvd

Go back to Calcium Binding Sites List in 4tvd
Calcium binding site 1 out of 1 in the N-Terminally Truncated Dextransucrase Dsr-E From Leuconostoc Mesenteroides Nrrl B-1299 in Complex with D-Glucose


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of N-Terminally Truncated Dextransucrase Dsr-E From Leuconostoc Mesenteroides Nrrl B-1299 in Complex with D-Glucose within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca2901

b:28.2
occ:1.00
 OD1 A:ASP2170 2.3 29.6 1.0
O A:HOH3300 2.3 24.6 1.0
O A:ASP2164 2.3 28.0 1.0
O A:HOH3294 2.3 26.8 1.0
OD1 A:ASN2693 2.4 22.7 1.0
O A:PHE2214 2.4 24.9 1.0
OD2 A:ASP2170 2.6 29.0 1.0
CG A:ASP2170 2.8 28.5 1.0
C A:ASP2164 3.5 29.0 1.0
CG A:ASN2693 3.5 25.1 1.0
C A:PHE2214 3.6 24.4 1.0
O A:ASN2693 4.1 26.8 1.0
OD1 A:ASP2164 4.1 36.0 1.0
O A:HOH3048 4.1 23.1 1.0
ND2 A:ASN2693 4.1 25.4 1.0
CB A:PHE2214 4.2 27.4 1.0
CA A:ASP2164 4.2 30.6 1.0
CB A:ASP2170 4.3 26.6 1.0
CA A:PHE2214 4.3 25.9 1.0
O A:VAL2171 4.4 30.5 1.0
O A:HOH3049 4.4 29.9 1.0
N A:PHE2165 4.5 29.6 1.0
N A:ILE2215 4.6 26.5 1.0
ND2 A:ASN2801 4.6 26.1 1.0
CG2 A:ILE2215 4.6 32.8 1.0
CB A:ASN2693 4.6 24.8 1.0
CA A:ILE2215 4.7 28.1 1.0
O A:HOH3193 4.7 27.4 1.0
CA A:ASN2693 4.7 26.3 1.0
CA A:PHE2165 4.8 29.0 1.0
C A:ASN2693 4.8 26.4 1.0
N A:VAL2171 5.0 26.6 1.0

Reference:

Y.Brison, Y.Malbert, G.Czaplicki, L.Mourey, M.Remaud-Simeon, S.Tranier. Structural Insights Into the Carbohydrate Binding Ability of An Alpha-(12) Branching Sucrase From Glycoside Hydrolase Family 70. J.Biol.Chem. V. 291 7527 2016.
ISSN: ESSN 1083-351X
PubMed: 26865636
DOI: 10.1074/JBC.M115.688796
Page generated: Sun Jul 14 13:32:41 2024

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