Magnesium in PDB 5u1c: Structure of Tetrameric Hiv-1 Strand Transfer Complex Intasome

Other elements in 5u1c:

The structure of Structure of Tetrameric Hiv-1 Strand Transfer Complex Intasome also contains other interesting chemical elements:

Zinc (Zn) 2 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Structure of Tetrameric Hiv-1 Strand Transfer Complex Intasome (pdb code 5u1c). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Structure of Tetrameric Hiv-1 Strand Transfer Complex Intasome, PDB code: 5u1c:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 5u1c

Go back to Magnesium Binding Sites List in 5u1c
Magnesium binding site 1 out of 2 in the Structure of Tetrameric Hiv-1 Strand Transfer Complex Intasome


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of Tetrameric Hiv-1 Strand Transfer Complex Intasome within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg501

b:2.6
occ:1.00
OD2 A:ASP64 2.0 3.0 1.0
OD2 A:ASP116 2.2 3.0 1.0
OP2 J:DG22 2.2 0.0 1.0
OD1 A:ASP64 2.4 3.0 1.0
CG A:ASP64 2.4 3.0 1.0
CG A:ASP116 3.2 3.0 1.0
O3' G:DT11 3.3 3.2 1.0
P J:DG22 3.7 0.0 1.0
OD1 A:ASP116 3.7 3.0 1.0
CB A:ASP64 3.8 3.0 1.0
C3' G:DT11 4.1 3.2 1.0
NE2 A:GLN152 4.2 2.7 1.0
CB A:ASP116 4.3 3.0 1.0
OP1 J:DG22 4.4 0.0 1.0
O5' J:DG22 4.5 0.0 1.0
O3' J:DA21 4.6 0.0 1.0
CA A:ASP64 4.7 3.0 1.0
C4' G:DT11 4.8 3.2 1.0
N A:CYS65 4.9 3.0 1.0
C5' G:DT11 5.0 3.2 1.0
O A:CYS65 5.0 3.0 1.0

Magnesium binding site 2 out of 2 in 5u1c

Go back to Magnesium Binding Sites List in 5u1c
Magnesium binding site 2 out of 2 in the Structure of Tetrameric Hiv-1 Strand Transfer Complex Intasome


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of Tetrameric Hiv-1 Strand Transfer Complex Intasome within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg501

b:3.1
occ:1.00
OD2 C:ASP64 2.0 4.1 1.0
OD2 C:ASP116 2.2 4.0 1.0
OP2 F:DG22 2.3 0.0 1.0
OD1 C:ASP64 2.3 4.1 1.0
CG C:ASP64 2.4 4.1 1.0
CG C:ASP116 3.1 4.0 1.0
O3' H:DT11 3.4 0.0 1.0
OD1 C:ASP116 3.6 4.0 1.0
P F:DG22 3.7 0.0 1.0
CB C:ASP64 3.8 4.1 1.0
C3' H:DT11 4.1 0.0 1.0
NE2 C:GLN152 4.2 3.7 1.0
CB C:ASP116 4.3 4.0 1.0
OP1 F:DG22 4.5 0.0 1.0
O5' F:DG22 4.5 0.0 1.0
O3' F:DA21 4.6 0.0 1.0
CA C:ASP64 4.7 4.1 1.0
C4' H:DT11 4.8 0.0 1.0
N C:CYS65 4.9 4.1 1.0
C5' H:DT11 5.0 0.0 1.0
O C:CYS65 5.0 4.1 1.0

Reference:

D.O.Passos, M.Li, R.Yang, S.V.Rebensburg, R.Ghirlando, Y.Jeon, N.Shkriabai, M.Kvaratskhelia, R.Craigie, D.Lyumkis. Cryo-Em Structures and Atomic Model of the Hiv-1 Strand Transfer Complex Intasome. Science V. 355 89 2017.
ISSN: ESSN 1095-9203
PubMed: 28059769
DOI: 10.1126/SCIENCE.AAH5163
Page generated: Mon Dec 14 21:13:49 2020

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