Fluorine in PDB 8gdj: Crystal Structure of Hiv-1 Lm/Ht Clade A/E CRF01 GP120 Core in Complex with Tfh-II-128

The structure of Crystal Structure of Hiv-1 Lm/Ht Clade A/E CRF01 GP120 Core in Complex with Tfh-II-128, PDB code: 8gdj was solved by D.N.Nguyen, W.D.Tolbert, M.Pazgier, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	45.30 / 2.42
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	62.18, 66.115, 91.173, 90, 90, 90
R / Rfree (%)	22.8 / 28.6

The structure of Crystal Structure of Hiv-1 Lm/Ht Clade A/E CRF01 GP120 Core in Complex with Tfh-II-128 also contains other interesting chemical elements:

Chlorine

(Cl)

1 atom

The binding sites of Fluorine atom in the Crystal Structure of Hiv-1 Lm/Ht Clade A/E CRF01 GP120 Core in Complex with Tfh-II-128 (pdb code 8gdj). 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 Crystal Structure of Hiv-1 Lm/Ht Clade A/E CRF01 GP120 Core in Complex with Tfh-II-128, PDB code: 8gdj:

Fluorine binding site 1 out of 1 in the Crystal Structure of Hiv-1 Lm/Ht Clade A/E CRF01 GP120 Core in Complex with Tfh-II-128


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 Hiv-1 Lm/Ht Clade A/E CRF01 GP120 Core in Complex with Tfh-II-128 within 5.0Å range: probe atom residue distance (Å) B Occ A:F513 b:40.1 occ:1.00 F16 A:Z6F513 0.0 40.1 1.0 C15 A:Z6F513 1.4 41.5 1.0 C17 A:Z6F513 2.4 43.4 1.0 C14 A:Z6F513 2.4 39.3 1.0 CL1 A:Z6F513 2.9 56.4 1.0 O A:THR375 3.1 49.3 1.0 CA A:SER256 3.5 47.3 1.0 CG2 A:THR257 3.6 44.5 1.0 CE A:MET475 3.6 48.9 1.0 C19 A:Z6F513 3.6 43.1 1.0 C A:SER256 3.7 48.0 1.0 C13 A:Z6F513 3.7 45.6 1.0 CG1 A:VAL255 3.7 43.0 1.0 N A:THR257 3.7 41.6 1.0 C A:THR375 3.7 47.6 1.0 N A:SER256 3.8 41.8 1.0 CG2 A:THR375 3.9 43.9 1.0 CB A:THR375 3.9 45.7 1.0 C20 A:Z6F513 4.1 44.4 1.0 C A:VAL255 4.2 50.1 1.0 O A:SER256 4.3 44.3 1.0 O A:VAL255 4.3 45.1 1.0 N A:PHE376 4.4 44.9 1.0 CA A:THR375 4.4 47.4 1.0 CB A:THR257 4.5 42.4 1.0 CA A:PHE376 4.6 47.6 1.0 OG1 A:THR257 4.7 42.6 1.0 CA A:THR257 4.7 39.0 1.0 SD A:MET475 4.8 52.0 1.0 CB A:SER256 4.9 51.4 1.0 CB A:VAL255 4.9 38.5 1.0 N12 A:Z6F513 4.9 43.3 1.0 O11 A:Z6F513 4.9 47.0 1.0

D.N.Nguyen, W.D.Tolbert, M.Pazgier. Crystal Structure of Hiv-1 Lm/Ht Clade A/E CRF01 GP120 Core in Complex with Tfh-II-128 To Be Published.