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Yttrium in PDB 1xkg: Crystal Structure of the Major House Dust Mite Allergen Der P 1 in Its Pro Form at 1.61 A Resolution

Protein crystallography data

The structure of Crystal Structure of the Major House Dust Mite Allergen Der P 1 in Its Pro Form at 1.61 A Resolution, PDB code: 1xkg was solved by K.Meno, P.B.Thorsted, M.Gajhede, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 40.00 / 1.61
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 64.659, 66.557, 73.388, 90.00, 90.00, 90.00
R / Rfree (%) 15.3 / 18.6

Yttrium Binding Sites:

The binding sites of Yttrium atom in the Crystal Structure of the Major House Dust Mite Allergen Der P 1 in Its Pro Form at 1.61 A Resolution (pdb code 1xkg). This binding sites where shown within 5.0 Angstroms radius around Yttrium atom.
In total only one binding site of Yttrium was determined in the Crystal Structure of the Major House Dust Mite Allergen Der P 1 in Its Pro Form at 1.61 A Resolution, PDB code: 1xkg:

Yttrium binding site 1 out of 1 in 1xkg

Go back to Yttrium Binding Sites List in 1xkg
Yttrium binding site 1 out of 1 in the Crystal Structure of the Major House Dust Mite Allergen Der P 1 in Its Pro Form at 1.61 A Resolution


Mono view


Stereo pair view

A full contact list of Yttrium with other atoms in the Y binding site number 1 of Crystal Structure of the Major House Dust Mite Allergen Der P 1 in Its Pro Form at 1.61 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Y401

b:16.7
occ:1.00
OE1 A:GLU139 2.4 14.8 1.0
OD1 A:ASP136 2.4 15.7 1.0
OE1 A:GLU171 2.4 15.5 1.0
O A:HOH614 2.4 14.2 1.0
O A:HOH603 2.4 16.4 1.0
O A:HOH604 2.4 13.4 1.0
O A:HOH607 2.5 15.0 1.0
O A:LEU137 2.5 15.2 1.0
CD A:GLU171 3.3 18.2 1.0
CD A:GLU139 3.3 17.3 1.0
CG A:ASP136 3.5 16.6 1.0
OE2 A:GLU139 3.7 16.3 1.0
C A:LEU137 3.7 16.7 1.0
OD2 A:ASP136 3.9 16.6 1.0
OE2 A:GLU171 3.9 18.3 1.0
O3 A:SO4501 4.2 18.6 1.0
CG A:GLU171 4.2 17.4 1.0
N A:LEU137 4.3 15.1 1.0
N A:GLU139 4.3 16.4 1.0
CB A:GLU171 4.4 18.5 1.0
C A:ASP136 4.5 15.9 1.0
O1 A:SO4501 4.5 19.6 1.0
OE2 A:GLU124 4.6 16.2 1.0
CA A:ALA138 4.6 16.8 1.0
N A:ALA138 4.6 15.6 1.0
CA A:LEU137 4.6 15.9 1.0
CG A:GLU139 4.7 15.9 1.0
NE A:ARG106 4.7 15.1 1.0
CB A:ASP136 4.7 16.3 1.0
O A:HOH618 4.8 17.4 1.0
CZ A:ARG106 4.8 16.5 1.0
CA A:ASP136 4.8 16.2 1.0
NH2 A:ARG106 4.9 17.1 1.0
O A:ASP136 5.0 17.6 1.0
S A:SO4501 5.0 18.9 1.0
CB A:GLU139 5.0 16.4 1.0

Reference:

K.Meno, P.B.Thorsted, H.Ipsen, O.Kristensen, J.N.Larsen, M.D.Spangfort, M.Gajhede, K.Lund. The Crystal Structure of Recombinant Proder P 1, A Major House Dust Mite Proteolytic Allergen. J.Immunol. V. 175 3835 2005.
ISSN: ISSN 0022-1767
PubMed: 16148130
Page generated: Wed Dec 16 02:40:48 2020

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