Chlorine in PDB 6axr: Structure of the P122A Mutant of the Hiv-1 Capsid Protein

The structure of Structure of the P122A Mutant of the Hiv-1 Capsid Protein, PDB code: 6axr was solved by A.T.Gres, K.A.Kirby, S.G.Sarafianos, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	46.91 / 2.30
Space group	P 6
Cell size a, b, c (Å), α, β, γ (°)	92.728, 92.728, 57.791, 90.00, 90.00, 120.00
R / Rfree (%)	24 / 26.8

The structure of Structure of the P122A Mutant of the Hiv-1 Capsid Protein also contains other interesting chemical elements:

Iodine

(I)

8 atoms

The binding sites of Chlorine atom in the Structure of the P122A Mutant of the Hiv-1 Capsid Protein (pdb code 6axr). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 5 binding sites of Chlorine where determined in the Structure of the P122A Mutant of the Hiv-1 Capsid Protein, PDB code: 6axr:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5;

Chlorine binding site 1 out of 5 in the Structure of the P122A Mutant of the Hiv-1 Capsid Protein


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Structure of the P122A Mutant of the Hiv-1 Capsid Protein within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl309 b:72.4 occ:1.00 NH2 A:ARG173 3.5 52.0 1.0 NE A:ARG173 4.4 53.1 1.0 CZ A:ARG173 4.4 53.2 1.0 CG A:PRO38 4.4 65.3 1.0 CD A:PRO38 4.5 62.9 1.0 CB A:PRO38 4.7 65.8 1.0

Chlorine binding site 2 out of 5 in the Structure of the P122A Mutant of the Hiv-1 Capsid Protein


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Structure of the P122A Mutant of the Hiv-1 Capsid Protein within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl310 b:68.5 occ:0.95 O A:GLY60 2.9 61.8 1.0 CG A:GLU28 3.8 83.6 1.0 CG1 A:VAL27 3.8 69.8 1.0 CD2 A:HIS62 3.9 79.1 1.0 CA A:GLU28 4.0 81.1 1.0 C A:GLY60 4.0 59.3 1.0 NE2 A:HIS62 4.1 82.2 1.0 N A:GLU28 4.2 76.5 1.0 C A:VAL27 4.4 72.3 1.0 O A:VAL27 4.4 70.8 1.0 N A:GLY60 4.4 57.7 1.0 CB A:GLU28 4.5 83.8 1.0 CG1 A:VAL59 4.5 53.2 1.0 CB A:VAL27 4.7 70.6 1.0 CA A:GLY60 4.7 58.5 1.0 CG A:HIS62 4.9 80.0 1.0

Chlorine binding site 3 out of 5 in the Structure of the P122A Mutant of the Hiv-1 Capsid Protein


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Structure of the P122A Mutant of the Hiv-1 Capsid Protein within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl311 b:79.8 occ:1.00 O A:HOH438 2.9 78.3 1.0 NE A:ARG167 3.3 68.7 1.0 CD1 A:ILE153 3.6 68.1 1.0 O A:HOH449 3.6 70.0 1.0 NH2 A:ARG167 3.8 69.2 1.0 CB A:ARG167 4.0 60.1 1.0 CZ A:ARG167 4.0 68.3 1.0 CG A:ARG167 4.2 62.6 1.0 CD A:ARG167 4.3 65.0 1.0 CG2 A:THR148 4.7 82.8 1.0 OG1 A:THR171 4.7 58.2 1.0 CA A:ARG167 5.0 58.8 1.0 CG1 A:ILE153 5.0 67.5 1.0

Chlorine binding site 4 out of 5 in the Structure of the P122A Mutant of the Hiv-1 Capsid Protein


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Structure of the P122A Mutant of the Hiv-1 Capsid Protein within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl312 b:0.1 occ:1.00 N A:PHE32 3.3 77.2 1.0 CB A:ALA31 3.5 80.3 1.0 CB A:PHE32 3.6 71.3 1.0 CD2 A:TYR145 3.7 88.8 1.0 CA A:PHE32 3.8 73.2 1.0 CB A:TYR145 3.9 85.8 1.0 C A:PHE32 4.1 72.6 1.0 CD2 A:PHE32 4.1 71.8 1.0 O A:PHE32 4.1 73.7 1.0 CG A:TYR145 4.3 90.4 1.0 C A:ALA31 4.3 77.4 1.0 CG A:PHE32 4.4 72.4 1.0 CA A:ALA31 4.5 79.0 1.0 O A:HOH403 4.6 64.1 1.0 O A:TYR145 4.6 81.2 1.0 CE2 A:TYR145 4.8 88.8 1.0 N A:SER33 4.8 71.5 1.0

Chlorine binding site 5 out of 5 in the Structure of the P122A Mutant of the Hiv-1 Capsid Protein


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of Structure of the P122A Mutant of the Hiv-1 Capsid Protein within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl313 b:81.4 occ:0.96 ND2 A:ASN21 3.2 89.5 1.0 CB A:ASN21 3.6 82.4 1.0 CA A:ASN21 3.7 77.0 1.0 CG A:ASN21 3.8 87.2 1.0 N A:ASN21 4.1 74.5 1.0 C A:LEU20 4.8 71.0 1.0 O A:PRO17 5.0 80.8 1.0

M.Novikova, L.J.Adams, J.Fontana, A.T.Gres, M.Balasubramaniam, D.C.Winkler, S.B.Kudchodkar, F.Soheilian, S.G.Sarafianos, A.C.Steven, E.O.Freed. Identification of A Structural Element in Hiv-1 Gag Required For Virus Particle Assembly and Maturation. Mbio V. 9 2018.
ISSN: ESSN 2150-7511
PubMed: 30327442
DOI: 10.1128/MBIO.01567-18