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Zinc in PDB 1yc5: SIR2-P53 Peptide-Nicotinamide

Protein crystallography data

The structure of SIR2-P53 Peptide-Nicotinamide, PDB code: 1yc5 was solved by J.L.Avalos, M.K.Bever, C.Wolberger, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.00 / 1.40
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 46.100, 59.749, 106.121, 90.00, 90.00, 90.00
R / Rfree (%) 18.5 / 20.2

Zinc Binding Sites:

The binding sites of Zinc atom in the SIR2-P53 Peptide-Nicotinamide (pdb code 1yc5). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the SIR2-P53 Peptide-Nicotinamide, PDB code: 1yc5:

Zinc binding site 1 out of 1 in 1yc5

Go back to Zinc Binding Sites List in 1yc5
Zinc binding site 1 out of 1 in the SIR2-P53 Peptide-Nicotinamide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of SIR2-P53 Peptide-Nicotinamide within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1001

b:17.1
occ:1.00
SG A:CYS151 2.3 18.5 1.0
SG A:CYS124 2.3 13.5 1.0
SG A:CYS127 2.3 18.7 1.0
SG A:CYS148 2.4 17.2 1.0
CB A:CYS148 3.1 17.7 1.0
CB A:CYS124 3.1 11.6 1.0
CB A:CYS127 3.4 18.1 1.0
CB A:CYS151 3.5 19.9 1.0
N A:CYS151 3.8 22.0 1.0
N A:CYS127 3.8 16.6 1.0
CA A:CYS127 4.1 17.1 1.0
CA A:CYS151 4.2 20.7 1.0
CB A:ASP150 4.5 23.6 1.0
CA A:CYS148 4.6 17.9 1.0
CA A:CYS124 4.6 12.2 1.0
CB A:SER153 4.6 16.1 1.0
CB A:LYS129 4.7 17.2 1.0
C A:CYS151 4.7 20.4 1.0
N A:SER153 4.8 17.7 1.0
CB A:ARG126 4.8 16.5 1.0
C A:ASP150 4.8 23.0 1.0
O A:HOH2168 4.8 35.6 1.0
C A:CYS127 4.8 17.9 1.0
N A:ASN152 4.8 20.2 1.0
OG A:SER153 4.9 17.4 1.0
N A:GLU128 4.9 17.4 1.0
C A:ARG126 5.0 16.7 1.0

Reference:

J.L.Avalos, K.M.Bever, C.Wolberger. Mechanism of Sirtuin Inhibition By Nicotinamide: Altering the Nad(+) Cosubstrate Specificity of A SIR2 Enzyme. Mol.Cell V. 17 855 2005.
ISSN: ISSN 1097-2765
PubMed: 15780941
DOI: 10.1016/J.MOLCEL.2005.02.022
Page generated: Sat Sep 26 00:29:50 2020
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