Magnesium in PDB 6ifr: Type III-A Csm Complex, Cryo-Em Structure of Csm-Ntr, Atp Bound

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Type III-A Csm Complex, Cryo-Em Structure of Csm-Ntr, Atp Bound (pdb code 6ifr). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Type III-A Csm Complex, Cryo-Em Structure of Csm-Ntr, Atp Bound, PDB code: 6ifr:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 6ifr

Go back to Magnesium Binding Sites List in 6ifr
Magnesium binding site 1 out of 2 in the Type III-A Csm Complex, Cryo-Em Structure of Csm-Ntr, Atp Bound


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Type III-A Csm Complex, Cryo-Em Structure of Csm-Ntr, Atp Bound within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg803

b:38.9
occ:1.00
O3A A:ATP802 2.1 48.8 1.0
O2G A:ATP802 2.1 48.8 1.0
O2B A:ATP802 2.1 48.8 1.0
O A:VAL520 2.3 36.9 1.0
OD2 A:ASP577 2.3 38.1 1.0
PB A:ATP802 2.4 48.8 1.0
O3B A:ATP802 2.8 48.8 1.0
O A:ASP521 2.9 43.4 1.0
PG A:ATP802 3.0 48.8 1.0
MG A:MG804 3.3 35.0 1.0
C A:VAL520 3.5 36.9 1.0
CG A:ASP577 3.5 38.1 1.0
PA A:ATP802 3.5 48.8 1.0
C A:ASP521 3.7 43.4 1.0
O2A A:ATP802 3.8 48.8 1.0
O1G A:ATP802 3.8 48.8 1.0
OD2 A:ASP519 3.9 33.5 1.0
O1B A:ATP802 3.9 48.8 1.0
CA A:ASP521 4.0 43.4 1.0
O5' A:ATP802 4.1 48.8 1.0
N A:ASP521 4.2 43.4 1.0
O3G A:ATP802 4.2 48.8 1.0
C5' A:ATP802 4.2 48.8 1.0
CB A:ASP577 4.3 38.1 1.0
CG A:ASP519 4.4 33.5 1.0
OD1 A:ASP577 4.4 38.1 1.0
N A:VAL520 4.5 36.9 1.0
NZ A:LYS637 4.6 36.6 1.0
CB A:ASP519 4.6 33.5 1.0
CA A:VAL520 4.6 36.9 1.0
N A:LEU523 4.6 47.8 1.0
O1A A:ATP802 4.6 48.8 1.0
CB A:LEU523 4.7 47.8 1.0
C4' A:ATP802 4.7 48.8 1.0
O4' A:ATP802 4.7 48.8 1.0
N A:ASP522 4.8 51.7 1.0
C A:ASP519 5.0 33.5 1.0

Magnesium binding site 2 out of 2 in 6ifr

Go back to Magnesium Binding Sites List in 6ifr
Magnesium binding site 2 out of 2 in the Type III-A Csm Complex, Cryo-Em Structure of Csm-Ntr, Atp Bound


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Type III-A Csm Complex, Cryo-Em Structure of Csm-Ntr, Atp Bound within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg804

b:35.0
occ:1.00
O2A A:ATP802 2.1 48.8 1.0
OD2 A:ASP519 2.1 33.5 1.0
OD2 A:ASP577 2.1 38.1 1.0
CB A:ASP519 2.5 33.5 1.0
CG A:ASP577 2.6 38.1 1.0
OD1 A:ASP577 2.6 38.1 1.0
CG A:ASP519 2.7 33.5 1.0
O3A A:ATP802 3.1 48.8 1.0
PA A:ATP802 3.2 48.8 1.0
MG A:MG803 3.3 38.9 1.0
CB A:ASP577 3.9 38.1 1.0
OD1 A:ASP519 3.9 33.5 1.0
O2G A:ATP802 4.0 48.8 1.0
CA A:ASP519 4.0 33.5 1.0
O1A A:ATP802 4.2 48.8 1.0
O5' A:ATP802 4.3 48.8 1.0
O A:VAL520 4.3 36.9 1.0
C5' A:ATP802 4.3 48.8 1.0
C A:ASP519 4.5 33.5 1.0
N A:VAL520 4.5 36.9 1.0
PB A:ATP802 4.6 48.8 1.0
C A:ASP577 4.6 38.1 1.0
N A:ASP578 4.7 33.4 1.0
O1G A:ATP802 4.8 48.8 1.0
CA A:ASP577 4.8 38.1 1.0
O2B A:ATP802 4.9 48.8 1.0
PG A:ATP802 4.9 48.8 1.0

Reference:

L.You, J.Ma, J.Wang, D.Artamonova, M.Wang, L.Liu, H.Xiang, K.Severinov, X.Zhang, Y.Wang. Structure Studies of the Crispr-Csm Complex Reveal Mechanism of Co-Transcriptional Interference Cell V. 176 239 2019.
ISSN: ISSN 1097-4172
PubMed: 30503210
DOI: 10.1016/J.CELL.2018.10.052
Page generated: Mon Dec 14 22:57:10 2020

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