Atomistry » Magnesium » PDB 3gnz-3gx2 » 3gx2
Atomistry »
  Magnesium »
    PDB 3gnz-3gx2 »
      3gx2 »

Magnesium in PDB 3gx2: Ttesam-I Riboswitch Variant A94GU34C Bound to Sinefungin

Protein crystallography data

The structure of Ttesam-I Riboswitch Variant A94GU34C Bound to Sinefungin, PDB code: 3gx2 was solved by R.K.Montange, R.T.Batey, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.41 / 2.90
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 62.614, 62.614, 158.395, 90.00, 90.00, 90.00
R / Rfree (%) 22.2 / 28.8

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Ttesam-I Riboswitch Variant A94GU34C Bound to Sinefungin (pdb code 3gx2). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 7 binding sites of Magnesium where determined in the Ttesam-I Riboswitch Variant A94GU34C Bound to Sinefungin, PDB code: 3gx2:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7;

Magnesium binding site 1 out of 7 in 3gx2

Go back to Magnesium Binding Sites List in 3gx2
Magnesium binding site 1 out of 7 in the Ttesam-I Riboswitch Variant A94GU34C Bound to Sinefungin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Ttesam-I Riboswitch Variant A94GU34C Bound to Sinefungin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg201

b:74.8
occ:1.00
O6 A:G56 3.6 70.8 1.0
N7 A:G55 3.7 0.0 1.0
N7 A:G56 3.8 82.8 1.0
C2 A:A46 4.1 69.5 1.0
C5 A:G55 4.2 97.4 1.0
O6 A:G55 4.2 72.7 1.0
N1 A:A45 4.2 69.7 1.0
C8 A:G55 4.4 0.3 1.0
C6 A:G56 4.4 73.2 1.0
N1 A:A46 4.4 75.7 1.0
C6 A:G55 4.4 79.7 1.0
C5 A:G56 4.5 78.6 1.0
C8 A:G56 4.9 89.2 1.0
C2 A:A45 5.0 63.3 1.0
N6 A:A45 5.0 66.6 1.0

Magnesium binding site 2 out of 7 in 3gx2

Go back to Magnesium Binding Sites List in 3gx2
Magnesium binding site 2 out of 7 in the Ttesam-I Riboswitch Variant A94GU34C Bound to Sinefungin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Ttesam-I Riboswitch Variant A94GU34C Bound to Sinefungin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg202

b:0.1
occ:1.00
OP2 A:A53 3.0 0.5 1.0
N1 A:G50 3.2 86.6 1.0
C5' A:A52 3.4 0.8 1.0
N2 A:G50 3.4 76.7 1.0
O4 A:U54 3.5 0.6 1.0
P A:A53 3.7 0.2 1.0
OP1 A:A53 3.8 0.2 1.0
O3' A:A52 3.8 0.4 1.0
C2 A:G50 3.8 83.4 1.0
C3' A:A52 4.1 0.7 1.0
C6 A:G50 4.2 85.6 1.0
C4' A:A52 4.2 0.5 1.0
C4 A:U54 4.3 99.6 1.0
O6 A:G50 4.3 82.3 1.0
O5' A:A52 4.4 0.9 1.0
C5 A:U54 4.5 0.1 1.0

Magnesium binding site 3 out of 7 in 3gx2

Go back to Magnesium Binding Sites List in 3gx2
Magnesium binding site 3 out of 7 in the Ttesam-I Riboswitch Variant A94GU34C Bound to Sinefungin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Ttesam-I Riboswitch Variant A94GU34C Bound to Sinefungin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg203

b:58.0
occ:1.00
O2 A:U64 3.0 48.4 1.0
O4 A:U67 3.1 67.4 1.0
O2' A:U64 3.6 50.5 1.0
C4 A:U67 4.0 50.6 1.0
C2 A:U64 4.0 50.2 1.0
N6 A:A24 4.3 65.0 1.0
O6 A:G68 4.3 82.2 1.0
N4 A:C25 4.3 61.7 1.0
C5 A:U67 4.4 47.5 1.0
C2 A:A85 4.6 52.0 1.0
N3 A:U64 4.8 56.6 1.0
C2' A:U64 4.8 50.1 1.0
C1' A:U64 4.8 47.7 1.0
N7 A:A24 4.8 58.5 1.0
OP2 A:C66 4.9 56.3 1.0
N1 A:U64 4.9 48.3 1.0

Magnesium binding site 4 out of 7 in 3gx2

Go back to Magnesium Binding Sites List in 3gx2
Magnesium binding site 4 out of 7 in the Ttesam-I Riboswitch Variant A94GU34C Bound to Sinefungin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Ttesam-I Riboswitch Variant A94GU34C Bound to Sinefungin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg204

b:61.7
occ:1.00
N6 A:A83 4.0 72.4 1.0
O6 A:G82 4.1 67.8 1.0
N7 A:G82 4.2 80.5 1.0
N7 A:A83 4.3 69.4 1.0
C6 A:G82 4.7 75.0 1.0
C5 A:G82 4.7 82.6 1.0
N6 A:A84 4.9 74.3 1.0
C6 A:A83 5.0 70.1 1.0
C5 A:A83 5.0 68.7 1.0

Magnesium binding site 5 out of 7 in 3gx2

Go back to Magnesium Binding Sites List in 3gx2
Magnesium binding site 5 out of 7 in the Ttesam-I Riboswitch Variant A94GU34C Bound to Sinefungin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Ttesam-I Riboswitch Variant A94GU34C Bound to Sinefungin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg205

b:69.3
occ:1.00
OP2 A:A33 4.1 77.4 1.0
OP2 A:G32 4.6 74.9 1.0
OP1 A:A33 4.7 69.2 1.0
P A:A33 5.0 74.1 1.0

Magnesium binding site 6 out of 7 in 3gx2

Go back to Magnesium Binding Sites List in 3gx2
Magnesium binding site 6 out of 7 in the Ttesam-I Riboswitch Variant A94GU34C Bound to Sinefungin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Ttesam-I Riboswitch Variant A94GU34C Bound to Sinefungin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg206

b:71.2
occ:1.00
O6 A:G27 3.5 61.8 1.0
O6 A:G28 4.0 58.2 1.0
O6 A:G23 4.1 79.2 1.0
N7 A:G27 4.1 67.4 1.0
OP2 A:U26 4.1 99.5 1.0
N7 A:G28 4.2 53.1 1.0
C6 A:G27 4.4 51.8 1.0
C6 A:G23 4.5 69.2 1.0
C5 A:U26 4.5 76.8 1.0
OP2 A:C25 4.5 85.7 1.0
C5 A:G27 4.6 53.5 1.0
C6 A:G28 4.7 54.5 1.0
C5 A:G28 4.8 53.0 1.0
C5 A:G23 5.0 68.4 1.0
N1 A:G23 5.0 66.4 1.0

Magnesium binding site 7 out of 7 in 3gx2

Go back to Magnesium Binding Sites List in 3gx2
Magnesium binding site 7 out of 7 in the Ttesam-I Riboswitch Variant A94GU34C Bound to Sinefungin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Ttesam-I Riboswitch Variant A94GU34C Bound to Sinefungin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg207

b:78.5
occ:1.00
OP2 A:U64 2.8 60.4 1.0
OP2 A:A10 2.9 98.2 1.0
OP1 A:A62 3.2 67.1 1.0
P A:U64 4.0 45.6 1.0
P A:A10 4.1 96.5 1.0
N7 A:G11 4.1 61.0 1.0
O6 A:G11 4.2 70.9 1.0
P A:A62 4.2 60.7 1.0
OP2 A:A62 4.3 58.8 1.0
OP1 A:A10 4.4 86.7 1.0
O3' A:U63 4.4 84.6 1.0
OP1 A:U64 4.6 42.7 1.0
N6 A:A12 4.7 70.7 1.0
C5 A:G11 4.9 63.5 1.0
C6 A:G11 4.9 65.3 1.0
O3' A:A9 5.0 0.2 1.0

Reference:

R.K.Montange, E.Mondragon, D.Van Tyne, A.D.Garst, P.Ceres, R.T.Batey. Discrimination Between Closely Related Cellular Metabolites By the Sam-I Riboswitch. J.Mol.Biol. V. 396 761 2010.
ISSN: ISSN 0022-2836
PubMed: 20006621
DOI: 10.1016/J.JMB.2009.12.007
Page generated: Wed Aug 14 14:58:37 2024

Last articles

Mg in 4Y52
Mg in 4Y30
Mg in 4Y2V
Mg in 4Y2X
Mg in 4Y2Y
Mg in 4Y2U
Mg in 4Y2T
Mg in 4Y2Q
Mg in 4Y2R
Mg in 4Y2S
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy