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Calcium in PDB 2yft: Crystal Structure of Inulosucrase From Lactobacillus Johnsonii NCC533 in Complex with 1-Kestose

Enzymatic activity of Crystal Structure of Inulosucrase From Lactobacillus Johnsonii NCC533 in Complex with 1-Kestose

All present enzymatic activity of Crystal Structure of Inulosucrase From Lactobacillus Johnsonii NCC533 in Complex with 1-Kestose:
2.4.1.9;

Protein crystallography data

The structure of Crystal Structure of Inulosucrase From Lactobacillus Johnsonii NCC533 in Complex with 1-Kestose, PDB code: 2yft was solved by T.Pijning, M.A.Anwar, H.Leemhuis, S.Kralj, L.Dijkhuizen, B.W.Dijkstra, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 43.89 / 1.85
Space group I 4 2 2
Cell size a, b, c (Å), α, β, γ (°) 171.204, 171.204, 115.003, 90.00, 90.00, 90.00
R / Rfree (%) 15.59 / 17.801

Calcium Binding Sites:

The binding sites of Calcium atom in the Crystal Structure of Inulosucrase From Lactobacillus Johnsonii NCC533 in Complex with 1-Kestose (pdb code 2yft). 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 Crystal Structure of Inulosucrase From Lactobacillus Johnsonii NCC533 in Complex with 1-Kestose, PDB code: 2yft:

Calcium binding site 1 out of 1 in 2yft

Go back to Calcium Binding Sites List in 2yft
Calcium binding site 1 out of 1 in the Crystal Structure of Inulosucrase From Lactobacillus Johnsonii NCC533 in Complex with 1-Kestose


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure of Inulosucrase From Lactobacillus Johnsonii NCC533 in Complex with 1-Kestose within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca1696

b:21.7
occ:0.50
 O A:TRP487 2.2 26.2 1.0
OE1 A:GLN450 2.3 33.5 1.0
OD1 A:ASP419 2.3 39.7 1.0
OD1 A:ASN489 2.3 27.4 1.0
OD2 A:ASP521 2.5 22.8 0.5
OD1 A:ASP521 2.6 17.5 0.5
O A:HOH2299 2.7 33.9 1.0
CG A:ASP521 2.9 21.2 0.5
C A:TRP487 3.4 26.1 1.0
CG A:ASP419 3.4 41.3 1.0
CG A:ASN489 3.5 24.9 1.0
CD A:GLN450 3.5 34.0 1.0
N A:ASN489 3.9 22.1 1.0
OD2 A:ASP419 3.9 41.2 1.0
ND2 A:ASN489 4.2 28.3 1.0
NE2 A:GLN450 4.2 35.3 1.0
CA A:TRP487 4.3 27.4 1.0
N A:SER488 4.4 24.5 1.0
N A:ASN420 4.4 36.6 1.0
O A:ASN420 4.4 32.9 1.0
CB A:ASP521 4.4 21.6 0.5
C A:SER488 4.4 22.9 1.0
CA A:SER488 4.5 23.6 1.0
CB A:ASN489 4.5 23.7 1.0
CB A:GLN450 4.5 30.1 1.0
CB A:TRP487 4.6 27.9 1.0
OG A:SER443 4.6 22.5 1.0
CG A:GLN450 4.6 31.9 1.0
CA A:ASN489 4.6 21.9 1.0
O A:HOH2295 4.7 39.6 1.0
CB A:ASP419 4.7 41.5 1.0
CB A:ASP521 4.8 22.8 0.5
CA A:ASP419 4.8 40.9 1.0
CB A:SER443 5.0 21.1 1.0

Reference:

T.Pijning, M.A.Anwar, M.Boger, J.M.Dobruchowska, H.Leemhuis, S.Kralj, L.Dijkhuizen, B.W.Dijkstra. Crystal Structure of Inulosucrase From Lactobacillus: Insights Into the Substrate Specificity and Product Specificity of GH68 Fructansucrases. J.Mol.Biol. V. 412 80 2011.
ISSN: ISSN 0022-2836
PubMed: 21801732
DOI: 10.1016/J.JMB.2011.07.031
Page generated: Tue Jul 8 09:38:36 2025

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