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Xenon in PDB 1zdm: Crystal Structure of Activated Chey Bound to Xe

Protein crystallography data

The structure of Crystal Structure of Activated Chey Bound to Xe, PDB code: 1zdm was solved by T.J.Lowery, M.Doucleff, E.J.Ruiz, S.M.Rubin, A.Pines, D.E.Wemmer, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 2.40
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 53.730, 53.820, 161.170, 90.00, 90.00, 90.00
R / Rfree (%) 22.4 / 26.7

Other elements in 1zdm:

The structure of Crystal Structure of Activated Chey Bound to Xe also contains other interesting chemical elements:

Fluorine (F) 6 atoms
Manganese (Mn) 2 atoms

Xenon Binding Sites:

The binding sites of Xenon atom in the Crystal Structure of Activated Chey Bound to Xe (pdb code 1zdm). This binding sites where shown within 5.0 Angstroms radius around Xenon atom.
In total 2 binding sites of Xenon where determined in the Crystal Structure of Activated Chey Bound to Xe, PDB code: 1zdm:
Jump to Xenon binding site number: 1; 2;

Xenon binding site 1 out of 2 in 1zdm

Go back to Xenon Binding Sites List in 1zdm
Xenon binding site 1 out of 2 in the Crystal Structure of Activated Chey Bound to Xe


Mono view


Stereo pair view

A full contact list of Xenon with other atoms in the Xe binding site number 1 of Crystal Structure of Activated Chey Bound to Xe within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Xe181

b:51.8
occ:0.30
O A:VAL11 3.2 35.9 1.0
N A:BFD57 3.8 38.1 1.0
CG2 A:ILE55 3.8 30.2 1.0
OD2 A:ASP12 3.8 38.6 1.0
CB A:VAL86 3.9 41.7 1.0
C A:SER56 3.9 25.4 1.0
CB A:ASP12 4.0 31.2 1.0
CA A:SER56 4.0 25.0 1.0
C A:VAL11 4.0 29.6 1.0
O A:VAL86 4.1 37.0 1.0
O A:ILE55 4.1 29.1 1.0
CG1 A:VAL86 4.2 46.8 1.0
N A:SER56 4.2 28.9 1.0
CG2 A:VAL21 4.2 52.8 1.0
C A:ILE55 4.3 28.6 1.0
CG A:MET17 4.4 44.2 1.0
CB A:BFD57 4.4 33.4 1.0
CA A:BFD57 4.4 36.6 1.0
CG1 A:VAL10 4.4 28.5 1.0
CG A:ASP12 4.5 34.9 1.0
O A:SER56 4.5 26.8 1.0
N A:VAL11 4.5 26.9 1.0
CG2 A:VAL86 4.6 35.6 1.0
CB A:ILE55 4.8 37.3 1.0
N A:ASP12 4.8 33.2 1.0
CA A:ASP12 4.8 25.6 1.0
CA A:VAL86 4.9 30.3 1.0
CA A:VAL11 4.9 21.5 1.0
C A:VAL86 4.9 29.6 1.0

Xenon binding site 2 out of 2 in 1zdm

Go back to Xenon Binding Sites List in 1zdm
Xenon binding site 2 out of 2 in the Crystal Structure of Activated Chey Bound to Xe


Mono view


Stereo pair view

A full contact list of Xenon with other atoms in the Xe binding site number 2 of Crystal Structure of Activated Chey Bound to Xe within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Xe182

b:61.0
occ:0.30
OD2 B:ASP12 3.2 44.0 1.0
O B:VAL11 3.2 33.2 1.0
CB B:ASP12 3.6 34.7 1.0
N B:BFD57 3.8 28.3 1.0
CG B:ASP12 3.8 35.2 1.0
CG B:MET17 3.9 53.4 1.0
C B:SER56 4.1 26.7 1.0
C B:VAL11 4.1 29.4 1.0
O B:VAL86 4.1 41.4 1.0
CB B:VAL86 4.1 34.3 1.0
CB B:BFD57 4.1 29.3 1.0
CA B:BFD57 4.2 33.1 1.0
CA B:SER56 4.3 25.7 1.0
CG2 B:ILE55 4.4 29.5 1.0
CG2 B:VAL21 4.4 51.6 1.0
CG1 B:VAL86 4.4 34.0 1.0
CA B:ASP12 4.5 37.3 1.0
O B:ILE55 4.6 34.7 1.0
CG1 B:VAL10 4.6 30.6 1.0
N B:SER56 4.6 28.0 1.0
N B:ASP12 4.6 35.7 1.0
O B:SER56 4.7 32.9 1.0
C B:ILE55 4.8 31.5 1.0
N B:VAL11 4.8 29.7 1.0
CG2 B:VAL86 4.8 33.0 1.0
CB B:MET17 5.0 39.7 1.0
C B:VAL86 5.0 40.6 1.0
CE B:LYS109 5.0 44.8 1.0

Reference:

T.J.Lowery, M.Doucleff, E.J.Ruiz, S.M.Rubin, A.Pines, D.E.Wemmer. Distinguishing Multiple Chemotaxis Y Protein Conformations with Laser-Polarized 129XE uc(Nmr). Protein Sci. V. 14 848 2005.
ISSN: ISSN 0961-8368
PubMed: 15741343
DOI: 10.1110/PS.041231005
Page generated: Wed Dec 16 02:39:35 2020

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