Sodium in PDB 7nza: Structure of OBP1 From Varroa Destructor, Form P2<1>

Protein crystallography data

The structure of Structure of OBP1 From Varroa Destructor, Form P2<1>, PDB code: 7nza was solved by C.Cambillau, B.Amigues, A.Roussel, P.Leone, A.Gaubert, P.Pelosi, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 38.83 / 1.20
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 31.604, 112.959, 41.817, 90, 98.95, 90
R / Rfree (%) 17.9 / 20.1

Sodium Binding Sites:

The binding sites of Sodium atom in the Structure of OBP1 From Varroa Destructor, Form P2<1> (pdb code 7nza). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Structure of OBP1 From Varroa Destructor, Form P2<1>, PDB code: 7nza:

Sodium binding site 1 out of 1 in 7nza

Go back to Sodium Binding Sites List in 7nza
Sodium binding site 1 out of 1 in the Structure of OBP1 From Varroa Destructor, Form P2<1>


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of OBP1 From Varroa Destructor, Form P2<1> within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na203

b:25.1
occ:1.00
NE A:ARG88 2.7 28.0 1.0
O A:LEU105 2.8 17.7 1.0
OD1 A:ASP109 3.0 18.5 1.0
O A:HOH339 3.1 25.1 1.0
OD2 A:ASP109 3.2 18.8 1.0
CG A:ASP109 3.3 17.1 1.0
CZ A:ARG88 3.5 27.7 1.0
NH2 A:ARG88 3.5 29.6 1.0
CD A:ARG88 3.6 24.6 1.0
C A:LEU105 3.6 16.3 1.0
CB A:LEU105 3.8 17.5 1.0
CD2 A:HIS108 3.8 16.1 1.0
CA A:LEU105 3.9 16.6 1.0
CG A:ARG88 4.1 21.7 1.0
CD2 A:LEU105 4.2 21.4 1.0
CB A:HIS108 4.3 14.8 1.0
CG A:HIS108 4.4 15.5 1.0
CG A:LEU105 4.5 19.5 1.0
N A:ASP109 4.5 14.6 1.0
CB A:ASP109 4.6 16.1 1.0
N A:LEU106 4.6 15.9 1.0
NH1 A:ARG88 4.8 29.3 1.0
NE2 A:HIS108 4.9 15.8 1.0
O A:HOH381 4.9 20.9 1.0
CD1 A:LEU105 5.0 20.9 1.0

Reference:

B.Amigues, J.Zhu, A.Gaubert, S.Arena, G.Renzone, P.Leone, I.M.Fischer, H.Paulsen, W.Knoll, A.Scaloni, A.Roussel, C.Cambillau, P.Pelosi. A New Non-Classical Fold of Varroa Odorant-Binding Proteins Reveals A Wide Open Internal Cavity. Sci Rep V. 11 13172 2021.
ISSN: ESSN 2045-2322
PubMed: 34162975
DOI: 10.1038/S41598-021-92604-2
Page generated: Mon Jul 12 16:05:17 2021

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