Chlorine in PDB 8gdk: Crystal Structure of Hiv-1 Lm/Ht Clade A/E CRF01 GP120 Core in Complex with Tfh-II-151

The structure of Crystal Structure of Hiv-1 Lm/Ht Clade A/E CRF01 GP120 Core in Complex with Tfh-II-151, PDB code: 8gdk 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)	40.29 / 2.65
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	61.418, 65.997, 90.826, 90, 90, 90
R / Rfree (%)	23.8 / 28.4

The structure of Crystal Structure of Hiv-1 Lm/Ht Clade A/E CRF01 GP120 Core in Complex with Tfh-II-151 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 Tfh-II-151 (pdb code 8gdk). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 4 binding sites of Chlorine where determined in the Crystal Structure of Hiv-1 Lm/Ht Clade A/E CRF01 GP120 Core in Complex with Tfh-II-151, PDB code: 8gdk:
Jump to Chlorine binding site number: 1; 2; 3; 4;

Chlorine binding site 1 out of 4 in the Crystal Structure of Hiv-1 Lm/Ht Clade A/E CRF01 GP120 Core in Complex with Tfh-II-151


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 Tfh-II-151 within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl514 b:61.2 occ:1.00 CL1 A:Z7N514 0.0 61.2 1.0 C18 A:Z7N514 1.8 52.2 1.0 C20 A:Z7N514 2.8 53.4 1.0 C16 A:Z7N514 2.8 54.6 1.0 F17 A:Z7N514 3.0 56.5 1.0 CD1 A:PHE382 3.6 57.6 1.0 CE1 A:PHE382 3.7 59.8 1.0 C A:PHE376 3.8 58.6 1.0 CA A:PHE376 3.9 56.5 1.0 CG1 A:VAL255 4.0 54.8 1.0 N A:PHE376 4.0 58.6 1.0 C21 A:Z7N514 4.1 55.7 1.0 N A:ASN377 4.1 60.1 1.0 C15 A:Z7N514 4.1 53.9 1.0 O A:PHE376 4.1 62.6 1.0 CH2 A:TRP112 4.1 61.3 1.0 O A:VAL255 4.1 56.0 1.0 CG2 A:THR375 4.1 61.8 1.0 C A:THR375 4.5 61.2 1.0 CB A:ASN377 4.5 52.7 1.0 C14 A:Z7N514 4.6 54.5 1.0 C A:VAL255 4.7 61.7 1.0 CZ3 A:TRP112 4.7 60.0 1.0 CB A:VAL255 4.7 55.3 1.0 O A:THR375 4.7 59.6 1.0 CB A:THR375 4.8 62.5 1.0 CA A:ASN377 4.8 54.7 1.0 CG A:PHE382 4.9 57.3 1.0

Chlorine binding site 2 out of 4 in the Crystal Structure of Hiv-1 Lm/Ht Clade A/E CRF01 GP120 Core in Complex with Tfh-II-151


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Crystal Structure of Hiv-1 Lm/Ht Clade A/E CRF01 GP120 Core in Complex with Tfh-II-151 within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl516 b:99.5 occ:1.00 CB A:ASP78 4.3 81.5 1.0 CA A:ASP78 4.4 79.5 1.0 N A:ASP78 4.6 76.4 1.0 CG A:ASP78 4.6 85.9 1.0 O A:PRO76 4.7 71.9 1.0 CG2 A:VAL75 4.8 68.6 1.0 OD2 A:ASP78 4.8 88.5 1.0 CE2 A:PHE53 4.9 64.5 1.0 CZ A:PHE53 4.9 65.4 1.0

Chlorine binding site 3 out of 4 in the Crystal Structure of Hiv-1 Lm/Ht Clade A/E CRF01 GP120 Core in Complex with Tfh-II-151


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Crystal Structure of Hiv-1 Lm/Ht Clade A/E CRF01 GP120 Core in Complex with Tfh-II-151 within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl517 b:92.1 occ:1.00 CE A:MET434 3.7 82.0 1.0 SD A:MET434 4.4 92.2 1.0 CB A:CYS119 4.6 67.4 1.0

Chlorine binding site 4 out of 4 in the Crystal Structure of Hiv-1 Lm/Ht Clade A/E CRF01 GP120 Core in Complex with Tfh-II-151


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Crystal Structure of Hiv-1 Lm/Ht Clade A/E CRF01 GP120 Core in Complex with Tfh-II-151 within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl518 b:98.5 occ:1.00 NE2 A:GLN362 4.9 84.3 1.0 CD A:GLN362 4.9 87.0 1.0 OE1 A:GLN362 4.9 87.1 1.0 CD1 A:ILE360 4.9 92.8 1.0

W.D.Tolbert, D.N.Nguyen, M.Pazgier. Crystal Structure of Hiv-1 Lm/Ht Clade A/E CRF01 GP120 Core in Complex with Tfh-II-151 To Be Published.