Zinc 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:

Fluorine (F) 2 atoms
Magnesium (Mg) 4 atoms
Chlorine (Cl) 2 atoms

Zinc Binding Sites:

The binding sites of Zinc 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 Zinc atom.
In total 2 binding sites of Zinc 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 Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 7ku7

Go back to Zinc Binding Sites List in 7ku7
Zinc 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 Zinc with other atoms in the Zn 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
A:Zn301

b:179.4
occ:1.00
ND1 A:HIS13 2.1 140.5 1.0
NE2 A:HIS9 2.1 148.4 1.0
SG A:CYS40 2.3 167.1 1.0
SG A:CYS37 2.3 146.6 1.0
CB A:CYS37 2.6 146.6 1.0
CE1 A:HIS13 2.8 140.5 1.0
CD2 A:HIS9 2.9 148.4 1.0
CE1 A:HIS9 3.1 148.4 1.0
CG A:HIS13 3.2 140.5 1.0
CB A:CYS40 3.5 167.1 1.0
CB A:HIS13 3.7 140.5 1.0
CA A:HIS13 4.0 140.5 1.0
NE2 A:HIS13 4.0 140.5 1.0
CG A:HIS9 4.0 148.4 1.0
ND1 A:HIS9 4.1 148.4 1.0
N A:CYS40 4.1 167.1 1.0
CA A:CYS37 4.2 146.6 1.0
CD2 A:HIS13 4.2 140.5 1.0
CA A:CYS40 4.3 167.1 1.0
O A:HIS9 4.7 148.4 1.0
C A:CYS37 4.7 146.6 1.0
O A:CYS37 4.7 146.6 1.0
C A:HIS13 4.8 140.5 1.0
O A:VAL34 4.9 154.2 1.0
C A:HIS39 4.9 147.4 1.0
CG1 E:VAL169 4.9 135.5 1.0
N A:CYS37 4.9 146.6 1.0

Zinc binding site 2 out of 2 in 7ku7

Go back to Zinc Binding Sites List in 7ku7
Zinc 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 Zinc with other atoms in the Zn 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
E:Zn301

b:193.1
occ:1.00
NE2 E:HIS9 2.0 163.1 1.0
ND1 E:HIS13 2.1 151.6 1.0
SG E:CYS37 2.3 157.5 1.0
SG E:CYS40 2.3 173.8 1.0
CB E:CYS37 2.6 157.5 1.0
CE1 E:HIS13 2.8 151.6 1.0
CE1 E:HIS9 2.9 163.1 1.0
CD2 E:HIS9 3.0 163.1 1.0
CG E:HIS13 3.3 151.6 1.0
CB E:CYS40 3.6 173.8 1.0
CB E:HIS13 3.8 151.6 1.0
ND1 E:HIS9 3.9 163.1 1.0
CG E:HIS9 4.0 163.1 1.0
NE2 E:HIS13 4.0 151.6 1.0
CA E:HIS13 4.0 151.6 1.0
N E:CYS40 4.1 173.8 1.0
CA E:CYS37 4.2 157.5 1.0
CD2 E:HIS13 4.2 151.6 1.0
CA E:CYS40 4.3 173.8 1.0
O E:HIS9 4.5 163.1 1.0
C E:CYS37 4.7 157.5 1.0
C E:HIS39 4.8 153.4 1.0
O E:CYS37 4.8 157.5 1.0
C E:HIS13 4.8 151.6 1.0
O E:VAL34 4.9 159.2 1.0
N E:CYS37 4.9 157.5 1.0
CG1 A:VAL169 5.0 139.7 1.0
CB E:HIS39 5.0 153.4 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 18:36:53 2021

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