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Zinc in PDB 1yxp: Hiv-1 Dis Rna Subtype F- Zn Soaked

Protein crystallography data

The structure of Hiv-1 Dis Rna Subtype F- Zn Soaked, PDB code: 1yxp was solved by E.Ennifar, P.Dumas, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 7.98 / 2.40
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 27.275, 118.629, 93.334, 90.00, 90.00, 90.00
R / Rfree (%) 27 / 30.3

Other elements in 1yxp:

The structure of Hiv-1 Dis Rna Subtype F- Zn Soaked also contains other interesting chemical elements:

Bromine (Br) 2 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Hiv-1 Dis Rna Subtype F- Zn Soaked (pdb code 1yxp). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Hiv-1 Dis Rna Subtype F- Zn Soaked, PDB code: 1yxp:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 1yxp

Go back to Zinc Binding Sites List in 1yxp
Zinc binding site 1 out of 2 in the Hiv-1 Dis Rna Subtype F- Zn Soaked


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Hiv-1 Dis Rna Subtype F- Zn Soaked within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn100

b:50.9
occ:0.75
N7 A:G10 2.3 44.0 1.0
C8 A:G10 3.2 44.2 1.0
C5 A:G10 3.5 41.8 1.0
O6 A:G10 3.8 38.9 1.0
C6 A:G10 4.0 41.1 1.0
N1 B:A16 4.4 41.6 1.0
OP1 A:G10 4.4 45.0 1.0
N9 A:G10 4.5 44.2 1.0
C4 A:G10 4.6 42.7 1.0
C2 B:A16 4.8 41.2 1.0

Zinc binding site 2 out of 2 in 1yxp

Go back to Zinc Binding Sites List in 1yxp
Zinc binding site 2 out of 2 in the Hiv-1 Dis Rna Subtype F- Zn Soaked


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Hiv-1 Dis Rna Subtype F- Zn Soaked within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn101

b:55.0
occ:0.77
N7 B:G10 2.3 46.4 1.0
C8 B:G10 3.2 48.1 1.0
C5 B:G10 3.3 46.5 1.0
O6 B:G10 3.6 41.4 1.0
C6 B:G10 3.8 46.0 1.0
N1 A:A16 4.4 47.3 1.0
N9 B:G10 4.4 48.2 1.0
C4 B:G10 4.5 46.5 1.0
OP1 B:G10 4.5 48.3 1.0
C2 A:A16 4.9 46.9 1.0

Reference:

E.Ennifar, P.Dumas. Polymorphism of Bulged-Out Residues in Hiv-1 Rna Dis Kissing Complex and Structure Comparison with Solution Studies. J.Mol.Biol. V. 356 771 2006.
ISSN: ISSN 0022-2836
PubMed: 16403527
DOI: 10.1016/J.JMB.2005.12.022
Page generated: Wed Dec 16 03:14:57 2020

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