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Iodine in PDB 6axt: Structure of the T58S/T107I/P122A Mutant of the Hiv-1 Capsid Protein

Protein crystallography data

The structure of Structure of the T58S/T107I/P122A Mutant of the Hiv-1 Capsid Protein, PDB code: 6axt 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) 46.70 / 2.40
Space group P 6
Cell size a, b, c (Å), α, β, γ (°) 92.407, 92.407, 57.509, 90.00, 90.00, 120.00
R / Rfree (%) 22.4 / 24.3

Other elements in 6axt:

The structure of Structure of the T58S/T107I/P122A Mutant of the Hiv-1 Capsid Protein also contains other interesting chemical elements:

Chlorine (Cl) 6 atoms

Iodine Binding Sites:

The binding sites of Iodine atom in the Structure of the T58S/T107I/P122A Mutant of the Hiv-1 Capsid Protein (pdb code 6axt). This binding sites where shown within 5.0 Angstroms radius around Iodine atom.
In total 9 binding sites of Iodine where determined in the Structure of the T58S/T107I/P122A Mutant of the Hiv-1 Capsid Protein, PDB code: 6axt:
Jump to Iodine binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9;

Iodine binding site 1 out of 9 in 6axt

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Iodine binding site 1 out of 9 in the Structure of the T58S/T107I/P122A Mutant of the Hiv-1 Capsid Protein


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 1 of Structure of the T58S/T107I/P122A Mutant of the Hiv-1 Capsid Protein within 5.0Å range:
probe atom residue distance (Å) B Occ
A:I301

b:75.9
occ:0.79
 N A:LYS158 3.7 76.4 1.0
CD A:PRO157 3.7 80.2 1.0
CA A:GLY156 3.8 73.5 1.0
N A:GLU159 3.8 62.2 1.0
N A:PRO157 3.9 76.9 1.0
C A:GLY156 4.0 73.8 1.0
C A:LYS158 4.1 66.6 1.0
CA A:LYS158 4.2 71.7 1.0
CB A:GLU159 4.3 64.7 1.0
CB A:LYS158 4.3 71.8 1.0
CA A:GLU159 4.4 65.1 1.0
C A:PRO157 4.7 77.5 1.0
O A:GLY156 4.8 73.1 1.0
CA A:PRO157 4.8 75.1 1.0
O A:LYS158 4.8 68.4 1.0
CG A:PRO157 4.8 78.6 1.0
N A:GLY156 4.9 73.5 1.0

Iodine binding site 2 out of 9 in 6axt

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Iodine binding site 2 out of 9 in the Structure of the T58S/T107I/P122A Mutant of the Hiv-1 Capsid Protein


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 2 of Structure of the T58S/T107I/P122A Mutant of the Hiv-1 Capsid Protein within 5.0Å range:
probe atom residue distance (Å) B Occ
A:I302

b:69.5
occ:0.67
 NH1 A:ARG173 3.8 58.3 1.0
OE1 A:GLU35 3.8 74.8 1.0
CD A:ARG173 3.9 60.9 1.0
CG A:LYS170 4.1 75.7 1.0
CG A:PRO34 4.4 60.1 1.0
CD A:PRO34 4.5 60.5 1.0
OG A:SER33 4.5 71.0 1.0
CB A:LYS170 4.5 69.8 1.0
CA A:LYS170 4.6 63.5 1.0
CB A:PRO34 4.6 59.2 1.0
CZ A:ARG173 4.6 61.2 1.0
NE A:ARG173 4.7 64.3 1.0
CG A:ARG173 4.9 62.0 1.0
CB A:ARG173 4.9 62.1 1.0
CD A:LYS170 5.0 81.4 1.0
CD A:GLU35 5.0 76.7 1.0

Iodine binding site 3 out of 9 in 6axt

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Iodine binding site 3 out of 9 in the Structure of the T58S/T107I/P122A Mutant of the Hiv-1 Capsid Protein


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 3 of Structure of the T58S/T107I/P122A Mutant of the Hiv-1 Capsid Protein within 5.0Å range:
probe atom residue distance (Å) B Occ
A:I303

b:81.7
occ:0.46
 O A:HOH419 3.4 56.0 1.0
CD A:ARG162 3.7 86.0 1.0
OE1 A:GLN219 3.8 0.6 1.0
CE A:MET215 4.0 66.6 1.0
CB A:GLN219 4.0 0.0 1.0
NH1 A:ARG162 4.0 97.9 1.0
O A:MET215 4.3 67.4 1.0
CB A:ARG162 4.6 64.9 1.0
CL A:CL310 4.6 0.5 1.0
CB A:MET215 4.6 67.6 1.0
CG A:ARG162 4.6 76.2 1.0
CD A:GLN219 4.8 0.4 1.0
NE A:ARG162 4.8 91.9 1.0
C A:MET215 4.8 70.0 1.0
CZ A:ARG162 4.9 97.3 1.0
CA A:GLN219 4.9 0.0 1.0

Iodine binding site 4 out of 9 in 6axt

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Iodine binding site 4 out of 9 in the Structure of the T58S/T107I/P122A Mutant of the Hiv-1 Capsid Protein


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 4 of Structure of the T58S/T107I/P122A Mutant of the Hiv-1 Capsid Protein within 5.0Å range:
probe atom residue distance (Å) B Occ
A:I304

b:84.1
occ:0.34
 I A:IOD305 3.7 88.2 0.4
CB A:PRO38 3.8 55.9 1.0
CA A:PRO38 4.2 60.9 1.0
O A:HOH415 4.2 89.4 1.0
CG A:PRO38 4.2 59.7 1.0
CL A:CL313 4.9 72.7 1.0

Iodine binding site 5 out of 9 in 6axt

Go back to Iodine Binding Sites List in 6axt
Iodine binding site 5 out of 9 in the Structure of the T58S/T107I/P122A Mutant of the Hiv-1 Capsid Protein


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 5 of Structure of the T58S/T107I/P122A Mutant of the Hiv-1 Capsid Protein within 5.0Å range:
probe atom residue distance (Å) B Occ
A:I305

b:88.2
occ:0.39
 I A:IOD304 3.7 84.1 0.3
CG2 A:ILE37 3.9 66.2 1.0
CA A:PRO38 4.0 60.9 1.0
O A:ILE37 4.1 48.3 1.0
N A:PRO38 4.1 59.2 1.0
C A:ILE37 4.2 59.6 1.0
CB A:SER41 4.4 73.6 1.0
CG A:PRO38 4.5 59.7 1.0
CB A:PRO38 4.7 55.9 1.0
CD A:PRO38 4.7 59.6 1.0
CD1 A:ILE135 4.7 65.0 1.0
CB A:ILE37 4.8 68.9 1.0
OG A:SER41 4.8 78.5 1.0
CL A:CL313 5.0 72.7 1.0

Iodine binding site 6 out of 9 in 6axt

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Iodine binding site 6 out of 9 in the Structure of the T58S/T107I/P122A Mutant of the Hiv-1 Capsid Protein


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 6 of Structure of the T58S/T107I/P122A Mutant of the Hiv-1 Capsid Protein within 5.0Å range:
probe atom residue distance (Å) B Occ
A:I306

b:0.8
occ:0.46
 NH2 A:ARG18 3.3 0.3 1.0
NE A:ARG18 3.9 0.3 1.0
CZ A:ARG18 4.0 0.5 1.0
CB A:ALA22 4.3 70.2 1.0
O A:ARG18 4.6 0.2 1.0

Iodine binding site 7 out of 9 in 6axt

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Iodine binding site 7 out of 9 in the Structure of the T58S/T107I/P122A Mutant of the Hiv-1 Capsid Protein


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 7 of Structure of the T58S/T107I/P122A Mutant of the Hiv-1 Capsid Protein within 5.0Å range:
probe atom residue distance (Å) B Occ
A:I307

b:0.4
occ:0.41
 CD A:PRO17 3.7 82.4 1.0
CG A:ARG18 3.8 0.4 1.0
CB A:SER16 4.2 77.8 1.0
CG A:PRO17 4.3 81.1 1.0
N A:ARG18 4.3 0.8 1.0
N A:PRO17 4.4 82.9 1.0
CB A:ARG18 4.6 0.7 1.0
CD A:ARG18 4.6 0.9 1.0
CB A:PRO17 4.7 84.0 1.0
OG A:SER16 4.8 75.2 1.0
CA A:SER16 5.0 82.8 1.0

Iodine binding site 8 out of 9 in 6axt

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Iodine binding site 8 out of 9 in the Structure of the T58S/T107I/P122A Mutant of the Hiv-1 Capsid Protein


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 8 of Structure of the T58S/T107I/P122A Mutant of the Hiv-1 Capsid Protein within 5.0Å range:
probe atom residue distance (Å) B Occ
A:I308

b:61.7
occ:0.29
 OD1 A:ASN74 3.2 76.2 1.0
CA A:SER102 4.1 69.2 1.0
CB A:ALA77 4.1 69.6 1.0
CB A:SER102 4.3 71.0 1.0
CG A:ASN74 4.3 77.2 1.0
CG1 A:ILE107 4.4 64.1 1.0
CB A:ALA105 4.4 56.6 1.0
CA A:ASN74 4.6 68.5 1.0
N A:SER102 4.6 71.7 1.0
O A:GLY101 4.7 66.2 1.0
O A:HOH432 4.8 63.7 1.0
CG2 A:ILE73 4.8 45.9 1.0
O A:ILE73 4.9 56.6 1.0
C A:GLY101 4.9 71.6 1.0
CB A:ASN74 5.0 72.7 1.0
N A:ASN74 5.0 66.0 1.0

Iodine binding site 9 out of 9 in 6axt

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Iodine binding site 9 out of 9 in the Structure of the T58S/T107I/P122A Mutant of the Hiv-1 Capsid Protein


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 9 of Structure of the T58S/T107I/P122A Mutant of the Hiv-1 Capsid Protein within 5.0Å range:
probe atom residue distance (Å) B Occ
A:I309

b:0.6
occ:0.55
 OD1 A:ASN21 3.5 0.8 1.0
CB A:ASN21 3.7 88.7 1.0
CA A:ASN21 3.7 79.8 1.0
CG A:ASN21 3.9 99.2 1.0
N A:ASN21 4.1 75.9 1.0
NZ A:LYS25 4.8 0.4 1.0
C A:LEU20 4.8 71.3 1.0
CG2 A:VAL24 4.9 68.5 1.0

Reference:

M.Novikova, A.T.Gres, K.A.Kirby, S.G.Sarafianos, E.O.Freed. Identification of A Novel Element in Hiv-1 Capsid Critical For Assembly and Maturation To Be Published.
Page generated: Sun Aug 11 22:32:19 2024

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