Zinc in PDB 4tn3: Structure of the Bbox-Coiled-Coil Region of Rhesus TRIM5ALPHA

All present enzymatic activity of Structure of the Bbox-Coiled-Coil Region of Rhesus TRIM5ALPHA:
3.2.1.17;

The structure of Structure of the Bbox-Coiled-Coil Region of Rhesus TRIM5ALPHA, PDB code: 4tn3 was solved by J.J.Kirkpatrick, J.P.Stoye, I.A.Taylor, D.C.Goldstone, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	33.93 / 3.20
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	124.118, 59.745, 146.962, 90.00, 94.77, 90.00
R / Rfree (%)	25.8 / 31.6

The binding sites of Zinc atom in the Structure of the Bbox-Coiled-Coil Region of Rhesus TRIM5ALPHA (pdb code 4tn3). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Structure of the Bbox-Coiled-Coil Region of Rhesus TRIM5ALPHA, PDB code: 4tn3:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the Structure of the Bbox-Coiled-Coil Region of Rhesus TRIM5ALPHA


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of the Bbox-Coiled-Coil Region of Rhesus TRIM5ALPHA within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn701 b:76.5 occ:1.00 OD2 A:ASP111 2.0 83.9 1.0 ND1 A:HIS125 2.0 39.9 1.0 ND1 A:HIS128 2.0 84.4 1.0 SG A:CYS108 2.3 84.3 1.0 HA A:HIS125 2.8 85.1 1.0 CE1 A:HIS125 2.9 40.5 1.0 HB2 A:CYS108 2.9 80.1 1.0 CE1 A:HIS128 2.9 90.5 1.0 HE1 A:HIS128 3.0 93.8 1.0 HE1 A:HIS125 3.0 51.9 1.0 CB A:CYS108 3.0 61.2 1.0 CG A:HIS125 3.1 61.0 1.0 CG A:ASP111 3.1 68.1 1.0 CG A:HIS128 3.2 91.8 1.0 O A:GLU124 3.2 94.3 1.0 HB3 A:CYS108 3.2 80.1 1.0 HB2 A:ASP111 3.3 56.6 1.0 HB3 A:HIS128 3.4 0.8 1.0 H A:ASP111 3.4 83.5 1.0 HB3 A:HIS125 3.4 84.1 1.0 CB A:HIS125 3.6 72.8 1.0 CA A:HIS125 3.6 73.8 1.0 HB2 A:HIS128 3.6 0.8 1.0 CB A:HIS128 3.6 0.5 1.0 CB A:ASP111 3.7 45.4 1.0 HB2 A:GLU110 4.0 78.5 1.0 NE2 A:HIS125 4.0 64.5 1.0 NE2 A:HIS128 4.1 90.5 1.0 CD2 A:HIS125 4.1 71.0 1.0 OD1 A:ASP111 4.1 70.2 1.0 C A:GLU124 4.1 99.1 1.0 CD2 A:HIS128 4.2 99.8 1.0 N A:ASP111 4.2 72.2 1.0 HD13 A:ILE115 4.3 64.1 1.0 N A:HIS125 4.4 77.2 1.0 CA A:CYS108 4.5 53.8 1.0 HB3 A:ASP111 4.5 56.6 1.0 HB2 A:HIS125 4.5 84.1 1.0 CA A:ASP111 4.6 45.7 1.0 HA A:CYS108 4.6 72.7 1.0 C A:HIS125 4.7 79.4 1.0 CB A:GLU110 4.9 68.5 1.0 O A:HIS125 4.9 81.8 1.0 H A:GLU110 4.9 77.4 1.0 HD2 A:HIS125 5.0 82.3 1.0

Zinc binding site 2 out of 4 in the Structure of the Bbox-Coiled-Coil Region of Rhesus TRIM5ALPHA


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of the Bbox-Coiled-Coil Region of Rhesus TRIM5ALPHA within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn702 b:68.4 occ:1.00 SG A:CYS97 2.0 77.2 1.0 ND1 A:HIS100 2.0 77.4 1.0 SG A:CYS119 2.1 64.5 1.0 SG A:CYS116 2.4 0.6 1.0 CE1 A:HIS100 2.8 79.0 1.0 HE1 A:HIS100 2.8 90.5 1.0 HB2 A:CYS97 3.0 35.8 1.0 H A:CYS119 3.1 93.5 1.0 CB A:CYS97 3.1 29.8 1.0 CG A:HIS100 3.1 93.7 1.0 HB2 A:HIS100 3.1 0.2 1.0 CB A:CYS119 3.3 64.5 1.0 HB2 A:CYS119 3.3 86.5 1.0 HB3 A:CYS97 3.4 35.8 1.0 N A:CYS119 3.5 71.4 1.0 H A:CYS116 3.6 92.1 1.0 CB A:HIS100 3.7 94.7 1.0 H A:HIS100 3.7 0.1 1.0 CA A:CYS119 3.7 80.4 1.0 HA A:CYS119 3.7 0.5 1.0 HB3 A:CYS116 3.8 80.8 1.0 CB A:CYS116 3.8 77.7 1.0 NE2 A:HIS100 3.9 86.6 1.0 CD2 A:HIS100 4.1 0.7 1.0 HB2 A:LEU118 4.1 65.2 1.0 HB3 A:CYS119 4.1 86.5 1.0 HB3 A:LEU118 4.2 65.2 1.0 N A:CYS116 4.3 89.0 1.0 HB3 A:HIS100 4.3 0.2 1.0 C A:LEU118 4.4 66.3 1.0 CA A:CYS97 4.4 46.9 1.0 N A:HIS100 4.5 0.6 1.0 HB2 A:CYS116 4.5 80.8 1.0 H A:LEU118 4.5 61.3 1.0 CA A:CYS116 4.5 97.0 1.0 HA A:CYS97 4.5 52.9 1.0 CB A:LEU118 4.6 57.1 1.0 CA A:HIS100 4.7 0.2 1.0 H A:ARG99 4.7 0.9 1.0 HD23 A:LEU104 4.8 0.6 1.0 HD21 A:LEU104 4.8 0.6 1.0 HB2 A:GLU102 4.8 83.4 1.0 C A:CYS116 4.9 98.9 1.0 CA A:LEU118 4.9 55.4 1.0 HB A:ILE115 4.9 50.7 1.0 O A:CYS116 4.9 0.7 1.0 N A:LEU118 4.9 53.2 1.0 HB3 A:ARG99 4.9 0.5 1.0 HD2 A:HIS100 4.9 0.3 1.0

Zinc binding site 3 out of 4 in the Structure of the Bbox-Coiled-Coil Region of Rhesus TRIM5ALPHA


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Structure of the Bbox-Coiled-Coil Region of Rhesus TRIM5ALPHA within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn700 b:66.7 occ:1.00 OD2 B:ASP111 2.0 80.6 1.0 ND1 B:HIS128 2.0 45.2 1.0 ND1 B:HIS125 2.1 46.3 1.0 SG B:CYS108 2.2 47.6 1.0 HB3 B:HIS125 2.5 70.7 1.0 CG B:HIS125 2.8 49.9 1.0 HB2 B:HIS128 2.9 57.1 1.0 CG B:HIS128 2.9 49.2 1.0 HA B:HIS125 2.9 67.7 1.0 CG B:ASP111 3.0 80.6 1.0 CB B:HIS125 3.0 62.8 1.0 CE1 B:HIS128 3.0 51.8 1.0 HB2 B:ASP111 3.1 87.9 1.0 CE1 B:HIS125 3.2 47.6 1.0 CB B:HIS128 3.2 48.1 1.0 HE1 B:HIS128 3.2 60.8 1.0 HB3 B:HIS128 3.2 57.1 1.0 CA B:HIS125 3.4 59.8 1.0 HE1 B:HIS125 3.5 55.5 1.0 CB B:ASP111 3.6 80.6 1.0 CB B:CYS108 3.6 94.6 1.0 HB2 B:CYS108 3.7 97.1 1.0 HB2 B:HIS125 3.9 70.7 1.0 OD1 B:ASP111 3.9 80.6 1.0 HB3 B:CYS108 3.9 97.1 1.0 CD2 B:HIS128 4.0 53.0 1.0 NE2 B:HIS128 4.0 73.8 1.0 CD2 B:HIS125 4.0 54.8 1.0 HB3 B:ASP111 4.1 87.9 1.0 NE2 B:HIS125 4.2 45.7 1.0 O B:GLU124 4.3 41.2 1.0 O B:HIS125 4.3 52.4 1.0 H B:ASP111 4.3 97.9 1.0 O B:GLN109 4.4 0.5 1.0 C B:HIS125 4.4 55.7 1.0 N B:HIS125 4.5 62.5 1.0 HB2 B:GLU110 4.7 0.4 1.0 N B:ASP111 4.7 90.6 1.0 CA B:HIS128 4.7 51.4 1.0 C B:GLU124 4.7 52.6 1.0 CA B:ASP111 4.8 90.6 1.0 HD2 B:HIS128 4.8 62.0 1.0 HD2 B:HIS125 4.8 62.7 1.0 CA B:CYS108 4.9 0.4 1.0 H B:HIS128 4.9 59.3 1.0 HA B:CYS108 4.9 0.8 1.0 HG2 B:GLU124 4.9 0.5 1.0

Zinc binding site 4 out of 4 in the Structure of the Bbox-Coiled-Coil Region of Rhesus TRIM5ALPHA


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Structure of the Bbox-Coiled-Coil Region of Rhesus TRIM5ALPHA within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn701 b:57.3 occ:1.00 HB2 B:CYS119 1.8 74.4 1.0 ND1 B:HIS100 2.1 26.6 1.0 SG B:CYS119 2.2 64.0 1.0 CB B:CYS119 2.2 56.6 1.0 SG B:CYS97 2.3 28.4 1.0 SG B:CYS116 2.3 73.3 1.0 HE1 B:HIS100 2.6 59.4 1.0 CE1 B:HIS100 2.6 47.7 1.0 H B:CYS119 2.9 99.9 1.0 CA B:CYS119 3.0 71.7 1.0 HA B:CYS119 3.0 89.4 1.0 HB3 B:CYS119 3.1 74.4 1.0 N B:CYS119 3.1 82.2 1.0 H B:CYS116 3.1 75.9 1.0 CG B:HIS100 3.3 30.4 1.0 HB2 B:HIS100 3.5 46.0 1.0 HB2 B:CYS97 3.5 38.5 1.0 CB B:CYS97 3.5 28.2 1.0 HB3 B:CYS97 3.8 38.5 1.0 CB B:CYS116 3.8 45.7 1.0 NE2 B:HIS100 3.8 54.8 1.0 N B:CYS116 3.9 64.8 1.0 CB B:HIS100 3.9 34.4 1.0 HB B:ILE115 3.9 63.6 1.0 HG22 B:ILE115 4.0 95.0 1.0 C B:LEU118 4.1 40.3 1.0 HB3 B:CYS116 4.1 56.8 1.0 CD2 B:HIS100 4.1 40.4 1.0 CA B:CYS116 4.3 51.0 1.0 O B:CYS116 4.3 58.7 1.0 HB3 B:ARG99 4.3 76.6 1.0 C B:CYS119 4.4 80.9 1.0 HB2 B:LEU118 4.4 46.6 1.0 C B:CYS116 4.4 45.8 1.0 H B:HIS100 4.5 65.5 1.0 HB3 B:LEU118 4.5 46.6 1.0 HB2 B:CYS116 4.5 56.8 1.0 HB3 B:HIS100 4.5 46.0 1.0 CG2 B:ILE115 4.6 86.8 1.0 HG21 B:ILE115 4.6 95.0 1.0 H B:LEU118 4.7 32.8 1.0 CB B:ILE115 4.7 55.4 1.0 O B:LEU118 4.7 40.9 1.0 CB B:LEU118 4.8 36.0 1.0 CA B:LEU118 4.8 28.6 1.0 N B:HIS100 4.8 53.8 1.0 N B:LEU118 4.8 22.2 1.0 HA B:ILE115 4.9 69.5 1.0 CA B:CYS97 4.9 29.7 1.0

D.C.Goldstone, P.A.Walker, L.J.Calder, P.J.Coombs, J.Kirkpatrick, N.J.Ball, L.Hilditch, M.W.Yap, P.B.Rosenthal, J.P.Stoye, I.A.Taylor. Structural Studies of Postentry Restriction Factors Reveal Antiparallel Dimers That Enable Avid Binding to the Hiv-1 Capsid Lattice. Proc.Natl.Acad.Sci.Usa V. 111 9609 2014.
ISSN: ESSN 1091-6490
PubMed: 24979782
DOI: 10.1073/PNAS.1402448111