Chlorine in PDB 8gd3: Crystal Structure of Hiv-1 Lm/Ht Clade A/E CRF01 GP120 Core in Complex with Dl-I-101

The structure of Crystal Structure of Hiv-1 Lm/Ht Clade A/E CRF01 GP120 Core in Complex with Dl-I-101, PDB code: 8gd3 was solved by W.D.Tolbert, D.N.Nguyen, M.Pazgier, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	28.40 / 2.19
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	62.73, 66.948, 92.175, 90, 90, 90
R / Rfree (%)	20.8 / 25.5

The structure of Crystal Structure of Hiv-1 Lm/Ht Clade A/E CRF01 GP120 Core in Complex with Dl-I-101 also contains other interesting chemical elements:

Fluorine

(F)

1 atom

The binding sites of Chlorine atom in the Crystal Structure of Hiv-1 Lm/Ht Clade A/E CRF01 GP120 Core in Complex with Dl-I-101 (pdb code 8gd3). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total only one binding site of Chlorine was determined in the Crystal Structure of Hiv-1 Lm/Ht Clade A/E CRF01 GP120 Core in Complex with Dl-I-101, PDB code: 8gd3:

Chlorine binding site 1 out of 1 in the Crystal Structure of Hiv-1 Lm/Ht Clade A/E CRF01 GP120 Core in Complex with Dl-I-101


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Crystal Structure of Hiv-1 Lm/Ht Clade A/E CRF01 GP120 Core in Complex with Dl-I-101 within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl512 b:83.8 occ:1.00 CL1 A:Z1Z512 0.0 83.8 1.0 C19 A:Z1Z512 1.8 45.2 1.0 C21 A:Z1Z512 2.8 47.7 1.0 C17 A:Z1Z512 2.8 46.0 1.0 F18 A:Z1Z512 3.0 44.9 1.0 CD1 A:PHE382 3.4 44.8 1.0 CE1 A:PHE382 3.6 46.1 1.0 CG1 A:VAL255 3.8 40.9 1.0 C A:PHE376 3.8 41.9 1.0 CA A:PHE376 3.9 41.8 1.0 N A:PHE376 4.0 39.3 1.0 C16 A:Z1Z512 4.0 44.6 1.0 C22 A:Z1Z512 4.1 46.3 1.0 N A:ASN377 4.1 40.4 1.0 O A:PHE376 4.1 42.3 1.0 CH2 A:TRP112 4.5 41.5 1.0 O A:VAL255 4.5 39.2 1.0 C A:SER375 4.5 42.1 1.0 C15 A:Z1Z512 4.6 46.6 1.0 CB A:ASN377 4.6 45.2 1.0 CG A:PHE382 4.7 43.2 1.0 CB A:SER375 4.7 43.4 1.0 CA A:ASN377 4.8 43.1 1.0 CB A:VAL255 4.8 40.8 1.0 O A:SER375 4.9 42.0 1.0 CZ A:PHE382 4.9 47.2 1.0 C A:VAL255 5.0 41.7 1.0 CZ3 A:TRP112 5.0 43.7 1.0

S.Ding, W.D.Tolbert, H.Zhu, D.Lee, L.Marchitto, T.Higgins, X.Zhao, D.Nguyen, R.Sherburn, J.Richard, G.Gendron-Lepage, H.Medjahed, M.Mohammadi, C.Abrams, M.Pazgier, A.B.Smith Iii, A.Finzi. Piperidine CD4-Mimetic Compounds Expose Vulnerable Env Epitopes Sensitizing Hiv-1-Infected Cells to Adcc. Viruses V. 15 2023.
ISSN: ESSN 1999-4915
PubMed: 37243271
DOI: 10.3390/V15051185