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Fluorine in PDB 3dll: The Oxazolidinone Antibiotics Perturb the Ribosomal Peptidyl- Transferase Center and Effect Trna Positioning

Protein crystallography data

The structure of The Oxazolidinone Antibiotics Perturb the Ribosomal Peptidyl- Transferase Center and Effect Trna Positioning, PDB code: 3dll was solved by D.N.Wilson, F.Schluenzen, J.M.Harms, A.L.Starosta, S.R.Connell, P.Fucini, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.98 / 3.50
Space group I 2 2 2
Cell size a, b, c (Å), α, β, γ (°) 169.700, 410.000, 695.000, 90.00, 90.00, 90.00
R / Rfree (%) 25.9 / 28

Other elements in 3dll:

The structure of The Oxazolidinone Antibiotics Perturb the Ribosomal Peptidyl- Transferase Center and Effect Trna Positioning also contains other interesting chemical elements:

Magnesium (Mg) 35 atoms
Zinc (Zn) 2 atoms

Fluorine Binding Sites:

The binding sites of Fluorine atom in the The Oxazolidinone Antibiotics Perturb the Ribosomal Peptidyl- Transferase Center and Effect Trna Positioning (pdb code 3dll). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total only one binding site of Fluorine was determined in the The Oxazolidinone Antibiotics Perturb the Ribosomal Peptidyl- Transferase Center and Effect Trna Positioning, PDB code: 3dll:

Fluorine binding site 1 out of 1 in 3dll

Go back to Fluorine Binding Sites List in 3dll
Fluorine binding site 1 out of 1 in the The Oxazolidinone Antibiotics Perturb the Ribosomal Peptidyl- Transferase Center and Effect Trna Positioning


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of The Oxazolidinone Antibiotics Perturb the Ribosomal Peptidyl- Transferase Center and Effect Trna Positioning within 5.0Å range:
probe atom residue distance (Å) B Occ
X:F2911

b:37.7
occ:1.00
F18 X:ZLD2911 0.0 37.7 1.0
C16 X:ZLD2911 1.3 32.9 1.0
C5 X:ZLD2911 2.4 31.7 1.0
C17 X:ZLD2911 2.4 31.2 1.0
C20 X:ZLD2911 2.6 31.4 1.0
N19 X:ZLD2911 2.8 30.1 1.0
MG X:MG2908 3.3 48.2 1.0
C3 X:ZLD2911 3.7 31.5 1.0
C2 X:ZLD2911 3.7 30.3 1.0
C21 X:ZLD2911 3.9 33.5 1.0
C6 X:U2485 4.1 21.1 1.0
C1 X:ZLD2911 4.1 30.5 1.0
C24 X:ZLD2911 4.2 28.3 1.0
C5 X:U2485 4.5 22.9 1.0
O4' X:U2485 4.6 14.5 1.0
N1 X:U2485 4.7 21.7 1.0
N4 X:ZLD2911 4.8 30.9 1.0
C2 X:A2430 4.9 1.1 1.0
C1' X:U2485 4.9 17.3 1.0

Reference:

D.N.Wilson, F.Schluenzen, J.M.Harms, A.L.Starosta, S.R.Connell, P.Fucini. The Oxazolidinone Antibiotics Perturb the Ribosomal Peptidyl-Transferase Center and Effect Trna Positioning Proc.Natl.Acad.Sci.Usa V. 105 13339 2008.
ISSN: ISSN 0027-8424
PubMed: 18757750
DOI: 10.1073/PNAS.0804276105
Page generated: Sun Dec 13 11:45:01 2020

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