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Bromine in PDB 6tb7: Crystal Structure of the Adp-Binding Domain of the Nad+ Riboswitch with Adenosine Monophosphate (Amp)

Protein crystallography data

The structure of Crystal Structure of the Adp-Binding Domain of the Nad+ Riboswitch with Adenosine Monophosphate (Amp), PDB code: 6tb7 was solved by L.Huang, D.M.J.Lilley, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 47.59 / 2.53
Space group I 2 2 2
Cell size a, b, c (Å), α, β, γ (°) 57.430, 59.450, 190.380, 90.00, 90.00, 90.00
R / Rfree (%) 20.4 / 23.8

Other elements in 6tb7:

The structure of Crystal Structure of the Adp-Binding Domain of the Nad+ Riboswitch with Adenosine Monophosphate (Amp) also contains other interesting chemical elements:

Magnesium (Mg) 7 atoms
Sodium (Na) 4 atoms

Bromine Binding Sites:

The binding sites of Bromine atom in the Crystal Structure of the Adp-Binding Domain of the Nad+ Riboswitch with Adenosine Monophosphate (Amp) (pdb code 6tb7). This binding sites where shown within 5.0 Angstroms radius around Bromine atom.
In total only one binding site of Bromine was determined in the Crystal Structure of the Adp-Binding Domain of the Nad+ Riboswitch with Adenosine Monophosphate (Amp), PDB code: 6tb7:

Bromine binding site 1 out of 1 in 6tb7

Go back to Bromine Binding Sites List in 6tb7
Bromine binding site 1 out of 1 in the Crystal Structure of the Adp-Binding Domain of the Nad+ Riboswitch with Adenosine Monophosphate (Amp)


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 1 of Crystal Structure of the Adp-Binding Domain of the Nad+ Riboswitch with Adenosine Monophosphate (Amp) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Br113

b:0.2
occ:1.00
C5 A:C3 1.9 0.9 1.0
C4 A:C3 2.7 0.0 1.0
N4 A:C3 2.9 0.5 1.0
C6 A:C3 2.9 0.2 1.0
N7 A:G2 3.4 96.3 1.0
C5 A:G2 3.5 95.1 1.0
C8 A:G2 3.6 95.7 1.0
OP2 A:C3 3.8 92.9 1.0
C4 A:G2 3.9 96.5 1.0
N9 A:G2 3.9 95.5 1.0
N3 A:C3 4.0 0.5 1.0
N1 A:C3 4.1 0.2 1.0
C6 A:G2 4.1 97.0 1.0
C3' A:G2 4.4 0.6 1.0
C2' A:G2 4.4 0.1 1.0
O5' A:C3 4.5 86.9 1.0
O6 A:G2 4.6 0.7 1.0
C2 A:C3 4.6 0.8 1.0
N3 A:G2 4.7 96.8 1.0
P A:C3 4.7 0.7 1.0
C1' A:G2 4.8 0.8 1.0
N1 A:G2 4.8 98.7 1.0

Reference:

L.Huang, J.Wang, D.M.J.Lilley. Structure and Ligand Binding of the Adp-Binding Domain of the Nad + Riboswitch. Rna V. 26 878 2020.
ISSN: ESSN 1469-9001
PubMed: 32295864
DOI: 10.1261/RNA.074898.120
Page generated: Sat Dec 12 02:38:11 2020

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