Fluorine in PDB 7ku7: Cryo-Em Structure of Rous Sarcoma Virus Cleaved Synaptic Complex (Csc) with Hiv-1 Integrase Strand Transfer Inhibitor Mk-2048. Cluster Identified By 3-Dimensional Variability Analysis in Cryosparc.

Other elements in 7ku7:

The structure of Cryo-Em Structure of Rous Sarcoma Virus Cleaved Synaptic Complex (Csc) with Hiv-1 Integrase Strand Transfer Inhibitor Mk-2048. Cluster Identified By 3-Dimensional Variability Analysis in Cryosparc. also contains other interesting chemical elements:

Magnesium (Mg) 4 atoms
Chlorine (Cl) 2 atoms
Zinc (Zn) 2 atoms

Fluorine Binding Sites:

The binding sites of Fluorine atom in the Cryo-Em Structure of Rous Sarcoma Virus Cleaved Synaptic Complex (Csc) with Hiv-1 Integrase Strand Transfer Inhibitor Mk-2048. Cluster Identified By 3-Dimensional Variability Analysis in Cryosparc. (pdb code 7ku7). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 2 binding sites of Fluorine where determined in the Cryo-Em Structure of Rous Sarcoma Virus Cleaved Synaptic Complex (Csc) with Hiv-1 Integrase Strand Transfer Inhibitor Mk-2048. Cluster Identified By 3-Dimensional Variability Analysis in Cryosparc., PDB code: 7ku7:
Jump to Fluorine binding site number: 1; 2;

Fluorine binding site 1 out of 2 in 7ku7

Go back to Fluorine Binding Sites List in 7ku7
Fluorine binding site 1 out of 2 in the Cryo-Em Structure of Rous Sarcoma Virus Cleaved Synaptic Complex (Csc) with Hiv-1 Integrase Strand Transfer Inhibitor Mk-2048. Cluster Identified By 3-Dimensional Variability Analysis in Cryosparc.


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of Cryo-Em Structure of Rous Sarcoma Virus Cleaved Synaptic Complex (Csc) with Hiv-1 Integrase Strand Transfer Inhibitor Mk-2048. Cluster Identified By 3-Dimensional Variability Analysis in Cryosparc. within 5.0Å range:
probe atom residue distance (Å) B Occ
J:F401

b:147.9
occ:1.00
FAH J:ZZX401 0.0 147.9 1.0
CAT J:ZZX401 1.4 147.9 1.0
CAV J:ZZX401 2.4 147.9 1.0
CAJ J:ZZX401 2.4 147.9 1.0
CLAI J:ZZX401 2.9 147.9 1.0
N1 I:DG4 3.5 144.1 1.0
CAL J:ZZX401 3.6 147.9 1.0
CAK J:ZZX401 3.6 147.9 1.0
CG A:GLN151 3.6 146.8 1.0
N4 J:DC35 3.8 146.2 1.0
C2 I:DG4 3.8 144.1 1.0
C6 I:DG4 3.9 144.1 1.0
C4 J:DC35 3.9 146.2 1.0
N2 I:DG4 4.1 144.1 1.0
CAU J:ZZX401 4.1 147.9 1.0
O6 I:DG4 4.2 144.1 1.0
C5 J:DC35 4.2 146.2 1.0
O A:SER150 4.3 145.0 1.0
CB A:GLN151 4.4 146.8 1.0
N3 J:DC35 4.5 146.2 1.0
C5 I:DG4 4.5 144.1 1.0
N3 I:DG4 4.6 144.1 1.0
CA A:GLN151 4.7 146.8 1.0
C4 I:DG4 4.8 144.1 1.0
CD A:GLN151 4.8 146.8 1.0
C6 J:DC35 4.9 146.2 1.0
NE2 A:GLN151 4.9 146.8 1.0

Fluorine binding site 2 out of 2 in 7ku7

Go back to Fluorine Binding Sites List in 7ku7
Fluorine binding site 2 out of 2 in the Cryo-Em Structure of Rous Sarcoma Virus Cleaved Synaptic Complex (Csc) with Hiv-1 Integrase Strand Transfer Inhibitor Mk-2048. Cluster Identified By 3-Dimensional Variability Analysis in Cryosparc.


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 2 of Cryo-Em Structure of Rous Sarcoma Virus Cleaved Synaptic Complex (Csc) with Hiv-1 Integrase Strand Transfer Inhibitor Mk-2048. Cluster Identified By 3-Dimensional Variability Analysis in Cryosparc. within 5.0Å range:
probe atom residue distance (Å) B Occ
L:F401

b:138.8
occ:1.00
FAH L:ZZX401 0.0 138.8 1.0
CAT L:ZZX401 1.3 138.8 1.0
CAV L:ZZX401 2.4 138.8 1.0
CAJ L:ZZX401 2.4 138.8 1.0
CLAI L:ZZX401 2.9 138.8 1.0
CG E:GLN151 3.5 134.5 1.0
N1 K:DG4 3.6 141.6 1.0
CAL L:ZZX401 3.6 138.8 1.0
CAK L:ZZX401 3.6 138.8 1.0
C2 K:DG4 3.8 141.6 1.0
N4 L:DC35 3.9 145.2 1.0
N2 K:DG4 4.0 141.6 1.0
CB E:GLN151 4.0 134.5 1.0
C6 K:DG4 4.1 141.6 1.0
C4 L:DC35 4.1 145.2 1.0
CAU L:ZZX401 4.1 138.8 1.0
O E:SER150 4.2 138.5 1.0
CA E:GLN151 4.4 134.5 1.0
C5 L:DC35 4.4 145.2 1.0
N3 K:DG4 4.5 141.6 1.0
O6 K:DG4 4.5 141.6 1.0
N3 L:DC35 4.6 145.2 1.0
C5 K:DG4 4.7 141.6 1.0
CD E:GLN151 4.8 134.5 1.0
C4 K:DG4 4.8 141.6 1.0
C E:SER150 5.0 138.5 1.0
NE2 E:GLN151 5.0 134.5 1.0

Reference:

K.K.Pandey, S.Bera, K.Shi, H.Aihara, D.P.Grandgenett, M.J.Rau, A.V.Oleru, J.A.J.Fitzpatrick, A.N.Engelman. Cryo-Em Structure of Rous Sarcoma Virus Cleaved Synaptic Complex (Csc) with Hiv-1 Integrase Strand Transfer Inhibitor Mk-2048 Commun Biol 2021.
ISSN: ESSN 2399-3642
DOI: 10.1038/S42003-021-01855-2
Page generated: Sat Apr 3 15:09:56 2021

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