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Bromine in PDB 3cj2: Crystal Structure of Hepatitis C Virus Rna-Dependent Rna Polymerase NS5B in Complex with Optimized Small Molecule Fragments

Enzymatic activity of Crystal Structure of Hepatitis C Virus Rna-Dependent Rna Polymerase NS5B in Complex with Optimized Small Molecule Fragments

All present enzymatic activity of Crystal Structure of Hepatitis C Virus Rna-Dependent Rna Polymerase NS5B in Complex with Optimized Small Molecule Fragments:
2.7.7.48;

Protein crystallography data

The structure of Crystal Structure of Hepatitis C Virus Rna-Dependent Rna Polymerase NS5B in Complex with Optimized Small Molecule Fragments, PDB code: 3cj2 was solved by C.Kissinger, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) N/A / 1.75
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 56.217, 86.133, 120.270, 90.00, 96.54, 90.00
R / Rfree (%) 21 / 26

Other elements in 3cj2:

The structure of Crystal Structure of Hepatitis C Virus Rna-Dependent Rna Polymerase NS5B in Complex with Optimized Small Molecule Fragments also contains other interesting chemical elements:

Nickel (Ni) 2 atoms

Bromine Binding Sites:

The binding sites of Bromine atom in the Crystal Structure of Hepatitis C Virus Rna-Dependent Rna Polymerase NS5B in Complex with Optimized Small Molecule Fragments (pdb code 3cj2). This binding sites where shown within 5.0 Angstroms radius around Bromine atom.
In total 2 binding sites of Bromine where determined in the Crystal Structure of Hepatitis C Virus Rna-Dependent Rna Polymerase NS5B in Complex with Optimized Small Molecule Fragments, PDB code: 3cj2:
Jump to Bromine binding site number: 1; 2;

Bromine binding site 1 out of 2 in 3cj2

Go back to Bromine Binding Sites List in 3cj2
Bromine binding site 1 out of 2 in the Crystal Structure of Hepatitis C Virus Rna-Dependent Rna Polymerase NS5B in Complex with Optimized Small Molecule Fragments


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 1 of Crystal Structure of Hepatitis C Virus Rna-Dependent Rna Polymerase NS5B in Complex with Optimized Small Molecule Fragments within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Br571

b:33.4
occ:1.00
BR1 A:SX3571 0.0 33.4 1.0
C11 A:SX3571 1.9 28.6 1.0
C10 A:SX3571 2.8 26.2 1.0
C12 A:SX3571 2.9 26.0 1.0
CB A:ARG422 3.6 17.0 1.0
NH1 A:ARG422 3.7 22.5 1.0
CZ A:ARG422 3.7 24.1 1.0
CG A:MET423 3.8 15.2 1.0
NE A:ARG422 3.8 25.9 1.0
CD A:ARG422 3.8 24.9 1.0
CD2 A:TRP528 3.9 26.1 1.0
CG A:TRP528 3.9 31.0 1.0
CE3 A:TRP528 4.1 19.4 1.0
C9 A:SX3571 4.1 29.5 1.0
C13 A:SX3571 4.2 34.0 1.0
CB A:TRP528 4.2 29.3 1.0
OH A:TYR477 4.2 22.6 1.0
CE1 A:TYR477 4.3 28.8 1.0
O A:LEU419 4.3 25.4 1.0
CG A:ARG422 4.3 18.7 1.0
CD1 A:LEU419 4.4 24.8 1.0
CE2 A:TRP528 4.4 23.6 1.0
NH2 A:ARG422 4.4 21.3 1.0
CD1 A:TRP528 4.4 21.4 1.0
CA A:LEU419 4.6 24.0 1.0
N A:MET423 4.7 16.0 1.0
NE1 A:TRP528 4.7 19.5 1.0
SD A:MET423 4.7 22.4 1.0
CZ A:TYR477 4.7 25.4 1.0
C14 A:SX3571 4.7 34.9 1.0
CZ3 A:TRP528 4.7 20.4 1.0
CA A:ARG422 4.9 19.5 1.0
O A:THR418 4.9 19.7 1.0
C A:ARG422 4.9 18.3 1.0
C A:LEU419 4.9 23.5 1.0

Bromine binding site 2 out of 2 in 3cj2

Go back to Bromine Binding Sites List in 3cj2
Bromine binding site 2 out of 2 in the Crystal Structure of Hepatitis C Virus Rna-Dependent Rna Polymerase NS5B in Complex with Optimized Small Molecule Fragments


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 2 of Crystal Structure of Hepatitis C Virus Rna-Dependent Rna Polymerase NS5B in Complex with Optimized Small Molecule Fragments within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Br571

b:34.1
occ:1.00
BR1 B:SX3571 0.0 34.1 1.0
C11 B:SX3571 1.9 31.0 1.0
C10 B:SX3571 2.8 36.6 1.0
C12 B:SX3571 2.9 22.2 1.0
CB B:ARG422 3.6 13.7 1.0
NH1 B:ARG422 3.7 18.6 1.0
CG B:MET423 3.7 8.4 1.0
CZ B:ARG422 3.8 19.8 1.0
NE B:ARG422 3.8 20.9 1.0
CD B:ARG422 3.8 14.0 1.0
CD2 B:TRP528 3.8 17.1 1.0
CG B:TRP528 3.9 23.5 1.0
CE3 B:TRP528 4.1 23.1 1.0
CB B:TRP528 4.1 23.1 1.0
C9 B:SX3571 4.1 31.5 1.0
C13 B:SX3571 4.1 27.8 1.0
CD1 B:LEU419 4.2 17.8 1.0
OH B:TYR477 4.2 18.9 1.0
CE1 B:TYR477 4.4 19.2 1.0
CG B:ARG422 4.4 14.7 1.0
CE2 B:TRP528 4.4 14.8 1.0
O B:LEU419 4.4 17.1 1.0
CD1 B:TRP528 4.4 22.7 1.0
NH2 B:ARG422 4.4 17.6 1.0
CA B:LEU419 4.5 21.2 1.0
N B:MET423 4.6 12.1 1.0
SD B:MET423 4.7 22.6 1.0
NE1 B:TRP528 4.7 23.9 1.0
C14 B:SX3571 4.7 30.4 1.0
CZ B:TYR477 4.7 24.0 1.0
CZ3 B:TRP528 4.7 27.4 1.0
CA B:ARG422 4.9 12.6 1.0
C B:ARG422 4.9 13.9 1.0
O B:THR418 4.9 17.8 1.0
C B:LEU419 4.9 19.4 1.0
O B:LEU474 4.9 25.3 1.0
CB B:MET423 5.0 8.9 1.0

Reference:

S.S.Antonysamy, B.Aubol, J.Blaney, M.F.Browner, A.M.Giannetti, S.F.Harris, N.Hebert, J.Hendle, S.Hopkins, E.Jefferson, C.Kissinger, V.Leveque, D.Marciano, E.Mcgee, I.Najera, B.Nolan, M.Tomimoto, E.Torres, T.Wright. Fragment-Based Discovery of Hepatitis C Virus NS5B Rna Polymerase Inhibitors. Bioorg.Med.Chem.Lett. V. 18 2990 2008.
ISSN: ISSN 0960-894X
PubMed: 18400495
DOI: 10.1016/J.BMCL.2008.03.056
Page generated: Wed Jul 10 19:12:33 2024

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