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Fluorine in PDB 8pan: Crystal Structure of the Metallo-Beta-Lactamase VIM1 with 2653

Protein crystallography data

The structure of Crystal Structure of the Metallo-Beta-Lactamase VIM1 with 2653, PDB code: 8pan was solved by K.Calvopina, J.Brem, A.J.M.Farley, M.D.Allen, C.J.Schofield, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 34.57 / 1.25
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 39.381, 67.896, 40.242, 90, 93.48, 90
R / Rfree (%) 12.8 / 14.8

Other elements in 8pan:

The structure of Crystal Structure of the Metallo-Beta-Lactamase VIM1 with 2653 also contains other interesting chemical elements:

Zinc (Zn) 2 atoms

Fluorine Binding Sites:

The binding sites of Fluorine atom in the Crystal Structure of the Metallo-Beta-Lactamase VIM1 with 2653 (pdb code 8pan). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 2 binding sites of Fluorine where determined in the Crystal Structure of the Metallo-Beta-Lactamase VIM1 with 2653, PDB code: 8pan:
Jump to Fluorine binding site number: 1; 2;

Fluorine binding site 1 out of 2 in 8pan

Go back to Fluorine Binding Sites List in 8pan
Fluorine binding site 1 out of 2 in the Crystal Structure of the Metallo-Beta-Lactamase VIM1 with 2653


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of Crystal Structure of the Metallo-Beta-Lactamase VIM1 with 2653 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F303

b:25.8
occ:0.55
F23 A:XZL303 0.0 25.8 0.6
F23 A:XZL303 0.4 23.6 0.5
C22 A:XZL303 1.3 21.5 0.5
C22 A:XZL303 1.4 22.8 0.6
C24 A:XZL303 2.3 21.4 0.5
C21 A:XZL303 2.3 20.4 0.5
C21 A:XZL303 2.4 20.4 0.6
C24 A:XZL303 2.4 23.0 0.6
H252 A:XZL303 2.4 26.3 0.5
H252 A:XZL303 2.5 29.6 0.6
HB2 A:HIS240 2.6 17.0 1.0
H211 A:XZL303 2.6 24.4 0.6
H211 A:XZL303 2.6 24.4 0.5
H271 A:XZL303 2.8 30.7 0.6
C25 A:XZL303 2.8 22.0 0.5
O A:HOH476 2.9 15.5 0.6
H273 A:XZL303 2.9 27.3 0.5
C25 A:XZL303 2.9 24.7 0.6
H273 A:XZL303 3.0 30.7 0.6
O A:HOH642 3.2 22.2 0.8
H271 A:XZL303 3.2 27.3 0.5
HB3 A:HIS240 3.3 17.0 1.0
CB A:HIS240 3.3 14.2 1.0
C27 A:XZL303 3.3 25.6 0.6
C27 A:XZL303 3.4 22.8 0.5
O A:HOH499 3.5 14.3 1.0
C30 A:XZL303 3.5 21.3 0.5
C20 A:XZL303 3.6 20.3 0.5
HD1 A:HIS201 3.6 27.1 1.0
C30 A:XZL303 3.7 22.2 0.6
C20 A:XZL303 3.7 18.8 0.6
CG A:HIS240 3.7 13.4 1.0
H251 A:XZL303 3.7 26.3 0.5
HE1 A:HIS201 3.7 28.3 1.0
S26 A:XZL303 3.8 26.1 0.6
S26 A:XZL303 3.9 22.6 0.5
H251 A:XZL303 3.9 29.6 0.6
C31 A:XZL303 4.1 20.6 0.5
CD2 A:HIS240 4.1 13.5 1.0
HD2 A:HIS240 4.1 16.1 1.0
C31 A:XZL303 4.2 20.4 0.6
ND1 A:HIS201 4.2 22.6 1.0
CE1 A:HIS201 4.3 23.6 1.0
H272 A:XZL303 4.3 30.7 0.6
O A:HOH696 4.4 28.5 0.7
H301 A:XZL303 4.4 25.5 0.5
H272 A:XZL303 4.4 27.3 0.5
ND1 A:HIS240 4.5 14.5 1.0
HA2 A:GLY209 4.5 29.4 1.0
H301 A:XZL303 4.5 26.6 0.6
O17 A:XZL303 4.6 22.3 0.5
O A:HIS240 4.6 13.7 1.0
CA A:HIS240 4.6 13.0 1.0
HA3 A:GLY209 4.6 29.4 1.0
O A:HOH475 4.7 12.8 0.9
O28 A:XZL303 4.7 21.6 0.5
HD1 A:HIS240 4.7 17.4 1.0
O29 A:XZL303 4.7 24.7 0.6
C19 A:XZL303 4.8 19.7 0.5
C A:HIS240 4.8 13.0 1.0
O17 A:XZL303 4.9 13.3 0.6
C19 A:XZL303 4.9 15.3 0.6
O28 A:XZL303 4.9 27.4 0.6
C16 A:XZL303 4.9 21.3 0.5
HD2 A:TYR67 4.9 18.9 1.0

Fluorine binding site 2 out of 2 in 8pan

Go back to Fluorine Binding Sites List in 8pan
Fluorine binding site 2 out of 2 in the Crystal Structure of the Metallo-Beta-Lactamase VIM1 with 2653


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 2 of Crystal Structure of the Metallo-Beta-Lactamase VIM1 with 2653 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F303

b:23.6
occ:0.45
F23 A:XZL303 0.0 23.6 0.5
F23 A:XZL303 0.4 25.8 0.6
C22 A:XZL303 1.4 21.5 0.5
C22 A:XZL303 1.5 22.8 0.6
C21 A:XZL303 2.3 20.4 0.5
C21 A:XZL303 2.4 20.4 0.6
C24 A:XZL303 2.4 21.4 0.5
HB2 A:HIS240 2.5 17.0 1.0
H211 A:XZL303 2.5 24.4 0.5
H211 A:XZL303 2.6 24.4 0.6
C24 A:XZL303 2.6 23.0 0.6
H252 A:XZL303 2.6 26.3 0.5
H271 A:XZL303 2.6 30.7 0.6
H273 A:XZL303 2.7 27.3 0.5
H252 A:XZL303 2.8 29.6 0.6
H273 A:XZL303 2.8 30.7 0.6
O A:HOH476 2.9 15.5 0.6
C25 A:XZL303 3.0 22.0 0.5
H271 A:XZL303 3.1 27.3 0.5
C25 A:XZL303 3.1 24.7 0.6
C27 A:XZL303 3.1 25.6 0.6
C27 A:XZL303 3.2 22.8 0.5
HD1 A:HIS201 3.3 27.1 1.0
CB A:HIS240 3.3 14.2 1.0
O A:HOH499 3.3 14.3 1.0
HE1 A:HIS201 3.4 28.3 1.0
HB3 A:HIS240 3.4 17.0 1.0
O A:HOH642 3.5 22.2 0.8
C20 A:XZL303 3.6 20.3 0.5
C30 A:XZL303 3.7 21.3 0.5
CG A:HIS240 3.7 13.4 1.0
C20 A:XZL303 3.7 18.8 0.6
C30 A:XZL303 3.8 22.2 0.6
S26 A:XZL303 3.8 26.1 0.6
S26 A:XZL303 3.8 22.6 0.5
ND1 A:HIS201 3.9 22.6 1.0
CE1 A:HIS201 3.9 23.6 1.0
H251 A:XZL303 3.9 26.3 0.5
HD2 A:HIS240 4.0 16.1 1.0
CD2 A:HIS240 4.0 13.5 1.0
H272 A:XZL303 4.1 30.7 0.6
H251 A:XZL303 4.1 29.6 0.6
C31 A:XZL303 4.2 20.6 0.5
H272 A:XZL303 4.2 27.3 0.5
C31 A:XZL303 4.2 20.4 0.6
O17 A:XZL303 4.3 22.3 0.5
O A:HOH475 4.4 12.8 0.9
HA2 A:GLY209 4.4 29.4 1.0
HA3 A:GLY209 4.4 29.4 1.0
O A:HIS240 4.5 13.7 1.0
ND1 A:HIS240 4.6 14.5 1.0
H301 A:XZL303 4.6 25.5 0.5
CA A:HIS240 4.6 13.0 1.0
O17 A:XZL303 4.6 13.3 0.6
O28 A:XZL303 4.7 21.6 0.5
H301 A:XZL303 4.7 26.6 0.6
O A:HOH511 4.7 11.9 0.5
O A:HOH696 4.7 28.5 0.7
C16 A:XZL303 4.7 21.3 0.5
O29 A:XZL303 4.8 24.7 0.6
C19 A:XZL303 4.8 19.7 0.5
C A:HIS240 4.8 13.0 1.0
HD1 A:HIS240 4.9 17.4 1.0
C19 A:XZL303 4.9 15.3 0.6
CA A:GLY209 4.9 24.6 1.0
O28 A:XZL303 4.9 27.4 0.6
C16 A:XZL303 4.9 12.5 0.6
H A:HIS240 5.0 14.0 1.0

Reference:

K.Calvopina, J.Brem, A.J.M.Farley, M.D.Allen, C.J.Schofield. Crystal Structure of the Metallo-Beta-Lactamase VIM1 with 2653 To Be Published.
Page generated: Wed Jul 16 06:26:07 2025

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