Zinc in PDB 2exf: Solution Structure of the Hiv-1 Nucleocapsid (NCP7(12-55)) Complexed with the Dna (-) Primer Binding Site

The binding sites of Zinc atom in the Solution Structure of the Hiv-1 Nucleocapsid (NCP7(12-55)) Complexed with the Dna (-) Primer Binding Site (pdb code 2exf). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Solution Structure of the Hiv-1 Nucleocapsid (NCP7(12-55)) Complexed with the Dna (-) Primer Binding Site, PDB code: 2exf:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Solution Structure of the Hiv-1 Nucleocapsid (NCP7(12-55)) Complexed with the Dna (-) Primer Binding Site


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Solution Structure of the Hiv-1 Nucleocapsid (NCP7(12-55)) Complexed with the Dna (-) Primer Binding Site within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn56 b:0.0 occ:1.00 SG A:CYS28 2.2 0.0 1.0 SG A:CYS18 2.3 0.0 1.0 SG A:CYS15 2.3 0.0 1.0 NE2 A:HIS23 2.4 0.0 1.0 HB2 A:CYS28 2.7 0.0 1.0 HD2 A:HIS23 2.8 0.0 1.0 CD2 A:HIS23 2.9 0.0 1.0 CB A:CYS28 3.0 0.0 1.0 HB3 A:CYS15 3.0 0.0 1.0 H A:CYS18 3.1 0.0 1.0 CB A:CYS15 3.1 0.0 1.0 HB3 A:CYS18 3.2 0.0 1.0 HB2 A:CYS15 3.2 0.0 1.0 CB A:CYS18 3.3 0.0 1.0 HA A:CYS28 3.4 0.0 1.0 HB3 A:ASN17 3.6 0.0 1.0 CE1 A:HIS23 3.6 0.0 1.0 N A:CYS18 3.8 0.0 1.0 CA A:CYS28 3.8 0.0 1.0 HB3 A:CYS28 3.9 0.0 1.0 HE1 A:HIS23 4.1 0.0 1.0 CA A:CYS18 4.1 0.0 1.0 HB2 A:CYS18 4.2 0.0 1.0 H A:GLY19 4.2 0.0 1.0 CG A:HIS23 4.3 0.0 1.0 HB2 A:LYS20 4.3 0.0 1.0 O A:THR24 4.4 0.0 1.0 O A:LYS20 4.5 0.0 1.0 H A:CYS28 4.5 0.0 1.0 CA A:CYS15 4.5 0.0 1.0 ND1 A:HIS23 4.6 0.0 1.0 CB A:ASN17 4.6 0.0 1.0 HA A:ALA25 4.6 0.0 1.0 N A:CYS28 4.7 0.0 1.0 N A:GLY19 4.8 0.0 1.0 H A:LYS20 4.8 0.0 1.0 C A:ASN17 4.8 0.0 1.0 C A:CYS18 4.9 0.0 1.0 H A:ASN17 4.9 0.0 1.0 HB2 A:ALA30 4.9 0.0 1.0 HA A:CYS15 4.9 0.0 1.0 C A:CYS28 5.0 0.0 1.0 C A:THR24 5.0 0.0 1.0 H A:ARG29 5.0 0.0 1.0 HA A:CYS18 5.0 0.0 1.0 CG A:ASN17 5.0 0.0 1.0

Zinc binding site 2 out of 2 in the Solution Structure of the Hiv-1 Nucleocapsid (NCP7(12-55)) Complexed with the Dna (-) Primer Binding Site


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Solution Structure of the Hiv-1 Nucleocapsid (NCP7(12-55)) Complexed with the Dna (-) Primer Binding Site within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn57 b:0.0 occ:1.00 SG A:CYS39 2.2 0.0 1.0 SG A:CYS36 2.2 0.0 1.0 SG A:CYS49 2.3 0.0 1.0 NE2 A:HIS44 2.4 0.0 1.0 HB2 A:CYS36 2.8 0.0 1.0 HB2 A:CYS49 2.8 0.0 1.0 HD2 A:HIS44 2.9 0.0 1.0 HB3 A:CYS39 2.9 0.0 1.0 CB A:CYS36 3.0 0.0 1.0 CD2 A:HIS44 3.0 0.0 1.0 CB A:CYS49 3.1 0.0 1.0 HB3 A:CYS36 3.1 0.0 1.0 CB A:CYS39 3.1 0.0 1.0 CE1 A:HIS44 3.6 0.0 1.0 HA A:CYS49 3.7 0.0 1.0 HG3 A:GLU51 3.7 0.0 1.0 HB2 A:LYS41 3.8 0.0 1.0 H A:CYS39 3.8 0.0 1.0 HB2 A:CYS39 3.9 0.0 1.0 HB2 A:GLU51 3.9 0.0 1.0 HB3 A:CYS49 4.0 0.0 1.0 CA A:CYS49 4.0 0.0 1.0 HG2 A:GLU51 4.0 0.0 1.0 HA A:MET46 4.1 0.0 1.0 HE1 A:HIS44 4.1 0.0 1.0 CA A:CYS39 4.2 0.0 1.0 O A:LYS41 4.2 0.0 1.0 H A:GLY40 4.2 0.0 1.0 CG A:HIS44 4.3 0.0 1.0 CG A:GLU51 4.3 0.0 1.0 N A:CYS39 4.3 0.0 1.0 H A:LYS41 4.4 0.0 1.0 H A:GLU51 4.4 0.0 1.0 O A:GLN45 4.4 0.0 1.0 CA A:CYS36 4.4 0.0 1.0 ND1 A:HIS44 4.6 0.0 1.0 C A:CYS39 4.6 0.0 1.0 N A:GLY40 4.6 0.0 1.0 H A:THR50 4.7 0.0 1.0 CB A:GLU51 4.7 0.0 1.0 HA A:CYS36 4.7 0.0 1.0 H A:CYS49 4.7 0.0 1.0 HD3 A:LYS41 4.8 0.0 1.0 N A:LYS41 4.8 0.0 1.0 CB A:LYS41 4.8 0.0 1.0 N A:CYS49 4.9 0.0 1.0 H A:CYS36 5.0 0.0 1.0

S.Bourbigot, N.Ramalanjaona, C.Boudier, G.F.Salgado, B.P.Roques, Y.Mely, S.Bouaziz, N.Morellet. How the Hiv-1 Nucleocapsid Protein Binds and Destabilises the (-)Primer Binding Site During Reverse Transcription. J.Mol.Biol. V. 383 1112 2008.
ISSN: ISSN 0022-2836
PubMed: 18773912
DOI: 10.1016/J.JMB.2008.08.046