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

Magnesium Binding Sites:

The binding sites of Magnesium 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 Magnesium atom.
In total 4 binding sites of Magnesium 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 Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in 7ku7

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Magnesium binding site 1 out of 4 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 Magnesium with other atoms in the Mg 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:Mg302

b:154.0
occ:1.00
 OAG J:ZZX401 1.9 147.9 1.0
OE2 A:GLU157 1.9 148.2 1.0
OAF J:ZZX401 1.9 147.9 1.0
OD2 A:ASP64 2.0 141.3 1.0
OE1 A:GLU157 2.3 148.2 1.0
CD A:GLU157 2.4 148.2 1.0
CAW J:ZZX401 2.7 147.9 1.0
CAZ J:ZZX401 2.7 147.9 1.0
CG A:ASP64 2.9 141.3 1.0
CBA J:ZZX401 3.0 147.9 1.0
MG A:MG303 3.0 153.4 1.0
OD1 A:ASP64 3.5 141.3 1.0
NBE J:ZZX401 3.8 147.9 1.0
CG A:GLU157 3.9 148.2 1.0
CAY J:ZZX401 3.9 147.9 1.0
CB A:ASP64 4.1 141.3 1.0
CB A:SER150 4.2 145.0 1.0
CBB J:ZZX401 4.2 147.9 1.0
CAN J:ZZX401 4.4 147.9 1.0
OG A:SER150 4.4 145.0 1.0
OAE J:ZZX401 4.5 147.9 1.0
CAS J:ZZX401 4.7 147.9 1.0
NBF J:ZZX401 4.7 147.9 1.0
CAL J:ZZX401 4.8 147.9 1.0
OP1 J:DA36 4.8 148.6 1.0
C8 J:DA36 4.8 148.6 1.0
CB A:GLU157 4.8 148.2 1.0
O A:PHE65 4.8 148.2 1.0
NAP J:ZZX401 4.9 147.9 1.0
N7 J:DA36 4.9 148.6 1.0
ND2 A:ASN160 5.0 144.3 1.0

Magnesium binding site 2 out of 4 in 7ku7

Go back to Magnesium Binding Sites List in 7ku7
Magnesium binding site 2 out of 4 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 Magnesium with other atoms in the Mg 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
A:Mg303

b:153.4
occ:1.00
 OAE J:ZZX401 2.0 147.9 1.0
OAG J:ZZX401 2.0 147.9 1.0
OD1 A:ASP64 2.0 141.3 1.0
CAS J:ZZX401 2.4 147.9 1.0
CAW J:ZZX401 2.5 147.9 1.0
CAY J:ZZX401 2.6 147.9 1.0
OD2 A:ASP121 2.8 147.9 1.0
CG A:ASP64 2.8 141.3 1.0
OD2 A:ASP64 3.0 141.3 1.0
MG A:MG302 3.0 154.0 1.0
CG A:ASP121 3.5 147.9 1.0
NBD J:ZZX401 3.6 147.9 1.0
CBA J:ZZX401 3.6 147.9 1.0
OE2 A:GLU157 3.8 148.2 1.0
NBF J:ZZX401 3.9 147.9 1.0
OD1 A:ASP121 3.9 147.9 1.0
CAO J:ZZX401 4.0 147.9 1.0
OG A:SER150 4.1 145.0 1.0
CB A:ASP64 4.2 141.3 1.0
N7 J:DA36 4.3 148.6 1.0
OAF J:ZZX401 4.4 147.9 1.0
CBB J:ZZX401 4.4 147.9 1.0
CB A:ASP121 4.4 147.9 1.0
CAZ J:ZZX401 4.4 147.9 1.0
CAM J:ZZX401 4.6 147.9 1.0
CB A:SER150 4.8 145.0 1.0
CA A:ASP64 4.8 141.3 1.0
N A:PHE65 4.8 148.2 1.0
CD A:GLU157 4.9 148.2 1.0
C8 J:DA36 4.9 148.6 1.0
CBC J:ZZX401 5.0 147.9 1.0

Magnesium binding site 3 out of 4 in 7ku7

Go back to Magnesium Binding Sites List in 7ku7
Magnesium binding site 3 out of 4 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 Magnesium with other atoms in the Mg binding site number 3 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:Mg302

b:146.3
occ:1.00
 OD1 E:ASP64 2.0 136.1 1.0
OD2 E:ASP121 2.1 141.7 1.0
OAE L:ZZX401 2.3 138.8 1.0
CG E:ASP121 2.5 141.7 1.0
OD1 E:ASP121 2.7 141.7 1.0
CG E:ASP64 3.0 136.1 1.0
CAS L:ZZX401 3.0 138.8 1.0
OAG L:ZZX401 3.2 138.8 1.0
OD2 E:ASP64 3.5 136.1 1.0
CAY L:ZZX401 3.5 138.8 1.0
CAW L:ZZX401 3.6 138.8 1.0
CB E:ASP121 3.6 141.7 1.0
NBD L:ZZX401 3.9 138.8 1.0
MG E:MG303 3.9 145.4 1.0
CB E:ASP64 4.1 136.1 1.0
OE2 E:GLU157 4.1 141.3 1.0
CAO L:ZZX401 4.5 138.8 1.0
CA E:ASP64 4.5 136.1 1.0
CAM L:ZZX401 4.5 138.8 1.0
N E:PHE65 4.7 137.4 1.0
NBF L:ZZX401 4.7 138.8 1.0
CBA L:ZZX401 4.8 138.8 1.0
CA E:ASP121 5.0 141.7 1.0

Magnesium binding site 4 out of 4 in 7ku7

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Magnesium binding site 4 out of 4 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 Magnesium with other atoms in the Mg binding site number 4 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:Mg303

b:145.4
occ:1.00
 OAG L:ZZX401 1.9 138.8 1.0
OE2 E:GLU157 2.0 141.3 1.0
OD2 E:ASP64 2.0 136.1 1.0
OE1 E:GLU157 2.1 141.3 1.0
OAF L:ZZX401 2.1 138.8 1.0
CD E:GLU157 2.3 141.3 1.0
CAW L:ZZX401 2.8 138.8 1.0
CAZ L:ZZX401 2.9 138.8 1.0
CG E:ASP64 3.0 136.1 1.0
CBA L:ZZX401 3.2 138.8 1.0
OD1 E:ASP64 3.6 136.1 1.0
CG E:GLU157 3.8 141.3 1.0
MG E:MG302 3.9 146.3 1.0
CAY L:ZZX401 4.0 138.8 1.0
NBE L:ZZX401 4.1 138.8 1.0
CB E:ASP64 4.2 136.1 1.0
OAE L:ZZX401 4.5 138.8 1.0
CBB L:ZZX401 4.5 138.8 1.0
CB E:SER150 4.5 138.5 1.0
CAN L:ZZX401 4.6 138.8 1.0
CB E:GLU157 4.6 141.3 1.0
ND2 E:ASN160 4.7 133.6 1.0
CAS L:ZZX401 4.7 138.8 1.0
O E:PHE65 4.8 137.4 1.0
O3' L:DC35 4.8 145.2 1.0
CAL L:ZZX401 4.8 138.8 1.0
NBF L:ZZX401 4.9 138.8 1.0
C2' L:DC35 4.9 145.2 1.0
OG E:SER150 5.0 138.5 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: Wed Oct 2 22:40:28 2024

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