Magnesium in PDB 6pb4: The E. Coli Class-II Cap-Dependent Transcription Activation Complex with De Novo Rna Transcript at the State 2

Enzymatic activity of The E. Coli Class-II Cap-Dependent Transcription Activation Complex with De Novo Rna Transcript at the State 2

All present enzymatic activity of The E. Coli Class-II Cap-Dependent Transcription Activation Complex with De Novo Rna Transcript at the State 2:
2.7.7.6;

Other elements in 6pb4:

The structure of The E. Coli Class-II Cap-Dependent Transcription Activation Complex with De Novo Rna Transcript at the State 2 also contains other interesting chemical elements:

Zinc (Zn) 2 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the The E. Coli Class-II Cap-Dependent Transcription Activation Complex with De Novo Rna Transcript at the State 2 (pdb code 6pb4). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the The E. Coli Class-II Cap-Dependent Transcription Activation Complex with De Novo Rna Transcript at the State 2, PDB code: 6pb4:

Magnesium binding site 1 out of 1 in 6pb4

Go back to Magnesium Binding Sites List in 6pb4
Magnesium binding site 1 out of 1 in the The E. Coli Class-II Cap-Dependent Transcription Activation Complex with De Novo Rna Transcript at the State 2


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of The E. Coli Class-II Cap-Dependent Transcription Activation Complex with De Novo Rna Transcript at the State 2 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg1503

b:20.0
occ:1.00
 OD2 D:ASP464 2.1 20.0 1.0
OD1 D:ASP460 2.1 20.0 1.0
OD1 D:ASP464 2.2 20.0 1.0
HO3' 3:G3 2.2 20.0 1.0
O3' 3:G3 2.3 20.0 1.0
CG D:ASP464 2.4 20.0 1.0
HO2' 3:G3 2.6 20.0 1.0
HH21 D:ARG425 3.0 20.0 1.0
O2' 3:G3 3.1 20.0 1.0
CG D:ASP460 3.2 20.0 1.0
H D:ASP460 3.3 20.0 1.0
OD1 D:ASP462 3.3 20.0 1.0
C3' 3:G3 3.5 20.0 1.0
NH2 D:ARG425 3.6 20.0 1.0
HH22 D:ARG425 3.7 20.0 1.0
OD2 D:ASP460 3.7 20.0 1.0
C2' 3:G3 3.7 20.0 1.0
O D:ASP460 3.8 20.0 1.0
H4' 3:G3 3.8 20.0 1.0
N D:ASP460 3.9 20.0 1.0
HA D:ALA459 3.9 20.0 1.0
CB D:ASP464 3.9 20.0 1.0
H2' 3:G3 4.0 20.0 1.0
H3' 3:G3 4.1 20.0 1.0
OD2 D:ASP462 4.1 20.0 1.0
CG D:ASP462 4.1 20.0 1.0
C4' 3:G3 4.3 20.0 1.0
HB2 D:ASP464 4.3 20.0 1.0
HB3 D:ASP464 4.4 20.0 1.0
CB D:ASP460 4.4 20.0 1.0
CA D:ASP460 4.5 20.0 1.0
C D:ASP460 4.5 20.0 1.0
HA D:ASP464 4.6 20.0 1.0
C D:ALA459 4.7 20.0 1.0
H D:ASP464 4.7 20.0 1.0
HE D:ARG425 4.7 20.0 1.0
CA D:ALA459 4.7 20.0 1.0
CA D:ASP464 4.7 20.0 1.0
CZ D:ARG425 4.7 20.0 1.0
N D:ASP464 4.9 20.0 1.0
H D:ASP462 4.9 20.0 1.0
HB3 D:ASP460 5.0 20.0 1.0
O D:ASN458 5.0 20.0 1.0

Reference:

W.Shi, Y.Jiang, Y.Deng, Z.Dong, B.Liu. Visualization of Two Architectures in Class-II Cap-Dependent Transcription Activation Plos Biol. 2020.
ISSN: ESSN 1545-7885
Page generated: Mon Dec 14 23:47:18 2020

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