Fluorine in PDB 8g8d: Crystal Structure of DH1346 Fab in Complex with Hiv Proximal Mper Peptide

The structure of Crystal Structure of DH1346 Fab in Complex with Hiv Proximal Mper Peptide, PDB code: 8g8d was solved by A.Niyongabo, B.M.Janus, G.Ofek, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	37.98 / 2.02
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	41.069, 115.513, 231.322, 90, 90, 90
R / Rfree (%)	19.8 / 23.4

The structure of Crystal Structure of DH1346 Fab in Complex with Hiv Proximal Mper Peptide also contains other interesting chemical elements:

Sodium

(Na)

10 atoms

The binding sites of Fluorine atom in the Crystal Structure of DH1346 Fab in Complex with Hiv Proximal Mper Peptide (pdb code 8g8d). 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 DH1346 Fab in Complex with Hiv Proximal Mper Peptide, PDB code: 8g8d:

Fluorine binding site 1 out of 1 in the Crystal Structure of DH1346 Fab in Complex with Hiv Proximal Mper Peptide


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 DH1346 Fab in Complex with Hiv Proximal Mper Peptide within 5.0Å range: probe atom residue distance (Å) B Occ L:F304 b:31.2 occ:1.00 OH L:TYR31 2.6 30.0 1.0 HA H:TYR100E 2.6 37.5 1.0 HD1 H:PHE100F 2.7 35.2 1.0 HE1 L:TYR31 2.7 33.4 1.0 OD1 P:ASP664 2.7 31.6 1.0 HH12 L:ARG91 2.8 31.9 1.0 O H:GLY100D 2.9 26.2 1.0 HH L:TYR31 3.2 36.0 1.0 HE1 H:PHE100F 3.2 36.1 1.0 HG P:SER668 3.3 29.3 1.0 CE1 L:TYR31 3.3 27.8 1.0 CZ L:TYR31 3.4 29.1 1.0 CD1 H:PHE100F 3.4 29.3 1.0 OG P:SER668 3.5 24.4 1.0 NH1 L:ARG91 3.5 26.6 1.0 CA H:TYR100E 3.6 31.2 1.0 HD22 P:ASN671 3.7 39.8 1.0 HD21 P:ASN671 3.7 39.8 1.0 CE1 H:PHE100F 3.7 30.0 1.0 HD2 H:TYR100E 3.7 34.6 1.0 H H:PHE100F 3.7 36.3 1.0 HH11 L:ARG91 3.8 31.9 1.0 CG P:ASP664 3.8 34.4 1.0 C H:GLY100D 3.9 28.1 1.0 CD2 H:TYR100E 4.0 28.8 1.0 ND2 P:ASN671 4.0 33.1 1.0 HH22 L:ARG91 4.1 29.7 1.0 N H:PHE100F 4.2 30.2 1.0 HH H:TYR100H 4.2 31.3 1.0 N H:TYR100E 4.2 27.3 1.0 OH H:TYR100H 4.2 26.1 1.0 O L:HOH442 4.3 26.6 1.0 HA P:ASP664 4.3 30.5 1.0 C H:TYR100E 4.3 34.5 1.0 CG H:TYR100E 4.4 32.1 1.0 HA P:SER668 4.4 38.9 1.0 HB2 P:ALA667 4.4 43.4 1.0 OD2 P:ASP664 4.4 29.8 1.0 CB H:TYR100E 4.4 25.3 1.0 CZ L:ARG91 4.5 26.5 1.0 HB3 H:TYR100E 4.5 30.4 1.0 CE2 H:TYR100E 4.6 27.0 1.0 CD1 L:TYR31 4.6 25.5 1.0 NH2 L:ARG91 4.6 24.9 1.0 CG H:PHE100F 4.7 24.7 1.0 O P:ASP664 4.7 26.0 1.0 CE2 L:TYR31 4.7 27.4 1.0 HB2 H:PHE100F 4.7 30.7 1.0 CB P:SER668 4.7 26.8 1.0 HE2 H:TYR100E 4.8 32.4 1.0 CA P:SER668 4.9 32.4 1.0 CB P:ASP664 4.9 31.7 1.0 N P:SER668 4.9 25.7 1.0 H P:SER668 4.9 30.9 1.0 HB3 P:ALA667 4.9 43.4 1.0 CA P:ASP664 5.0 25.4 1.0 HD1 L:TYR31 5.0 30.6 1.0

B.M.Janus, A.Astavans, G.Ofek. Vaccine Induction of Heterologous Hiv-1 Neutralizing Antibody B Cell Lineages in Humans Cell(Cambridge,Mass.) 2024.
ISSN: ISSN 0092-8674