Atomistry » Potassium » PDB 3zq6-4bg9 » 4aob
Atomistry »
  Potassium »
    PDB 3zq6-4bg9 »
      4aob »

Potassium in PDB 4aob: Sam-I Riboswitch Containing the T. Solenopsae Kt-23 in Complex with S-Adenosyl Methionine

Protein crystallography data

The structure of Sam-I Riboswitch Containing the T. Solenopsae Kt-23 in Complex with S-Adenosyl Methionine, PDB code: 4aob was solved by K.T.Schroeder, P.Daldrop, S.A.Mcphee, D.M.J.Lilley, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50 / 2.95
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 61.300, 61.300, 157.538, 90.00, 90.00, 90.00
R / Rfree (%) 18.906 / 23.943

Other elements in 4aob:

The structure of Sam-I Riboswitch Containing the T. Solenopsae Kt-23 in Complex with S-Adenosyl Methionine also contains other interesting chemical elements:

Barium (Ba) 15 atoms
Sodium (Na) 4 atoms

Potassium Binding Sites:

The binding sites of Potassium atom in the Sam-I Riboswitch Containing the T. Solenopsae Kt-23 in Complex with S-Adenosyl Methionine (pdb code 4aob). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 8 binding sites of Potassium where determined in the Sam-I Riboswitch Containing the T. Solenopsae Kt-23 in Complex with S-Adenosyl Methionine, PDB code: 4aob:
Jump to Potassium binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Potassium binding site 1 out of 8 in 4aob

Go back to Potassium Binding Sites List in 4aob
Potassium binding site 1 out of 8 in the Sam-I Riboswitch Containing the T. Solenopsae Kt-23 in Complex with S-Adenosyl Methionine


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Sam-I Riboswitch Containing the T. Solenopsae Kt-23 in Complex with S-Adenosyl Methionine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K1108

b:57.4
occ:1.00
OP1 A:G1 2.5 0.6 1.0
P A:G1 3.7 83.0 1.0
OP2 A:G1 3.9 70.2 1.0
O5' A:G1 4.5 76.4 1.0
OP3 A:G1 4.7 82.1 1.0
BA A:BA1101 5.0 0.5 1.0

Potassium binding site 2 out of 8 in 4aob

Go back to Potassium Binding Sites List in 4aob
Potassium binding site 2 out of 8 in the Sam-I Riboswitch Containing the T. Solenopsae Kt-23 in Complex with S-Adenosyl Methionine


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Sam-I Riboswitch Containing the T. Solenopsae Kt-23 in Complex with S-Adenosyl Methionine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K1109

b:77.1
occ:1.00
O4 A:U80 3.0 69.5 1.0
O6 A:G79 3.2 62.0 1.0
O6 A:G71 3.3 74.4 1.0
N6 A:A70 3.5 61.4 1.0
N6 A:A72 3.7 80.4 1.0
C4 A:U80 4.0 70.6 1.0
C6 A:A70 4.3 71.6 1.0
O A:HOH2007 4.3 31.2 1.0
N3 A:U80 4.4 68.8 1.0
C6 A:G71 4.4 74.0 1.0
C6 A:G79 4.4 64.3 1.0
C6 A:A72 4.6 84.5 1.0
N1 A:A72 4.7 96.0 1.0
N7 A:G71 4.8 74.2 1.0
C5 A:A70 4.9 75.1 1.0
N1 A:A70 5.0 67.7 1.0
C5 A:G71 5.0 71.8 1.0

Potassium binding site 3 out of 8 in 4aob

Go back to Potassium Binding Sites List in 4aob
Potassium binding site 3 out of 8 in the Sam-I Riboswitch Containing the T. Solenopsae Kt-23 in Complex with S-Adenosyl Methionine


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Sam-I Riboswitch Containing the T. Solenopsae Kt-23 in Complex with S-Adenosyl Methionine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K1110

b:78.8
occ:1.00
N7 A:G42 3.3 86.6 1.0
OP2 A:C41 3.4 94.6 1.0
O6 A:G42 3.5 77.8 1.0
C5 A:G42 4.1 87.4 1.0
C6 A:G42 4.2 87.7 1.0
O6 A:G43 4.2 78.2 1.0
C8 A:G42 4.4 99.3 1.0
C5 A:C41 4.5 0.7 1.0
P A:C41 4.6 94.9 1.0
O5' A:C41 4.9 92.6 1.0
OP1 A:C41 5.0 0.7 1.0
N7 A:G43 5.0 91.5 1.0

Potassium binding site 4 out of 8 in 4aob

Go back to Potassium Binding Sites List in 4aob
Potassium binding site 4 out of 8 in the Sam-I Riboswitch Containing the T. Solenopsae Kt-23 in Complex with S-Adenosyl Methionine


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of Sam-I Riboswitch Containing the T. Solenopsae Kt-23 in Complex with S-Adenosyl Methionine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K1111

b:0.2
occ:1.00
NA A:NA1138 3.3 63.2 1.0
OP1 A:C3 3.4 64.6 1.0
OP1 A:A85 4.0 81.4 1.0
OP2 A:C3 4.0 56.9 1.0
P A:C3 4.2 67.8 1.0
OP2 A:A85 4.6 69.8 1.0
OP2 A:U4 4.6 59.5 1.0
P A:A85 4.7 76.9 1.0

Potassium binding site 5 out of 8 in 4aob

Go back to Potassium Binding Sites List in 4aob
Potassium binding site 5 out of 8 in the Sam-I Riboswitch Containing the T. Solenopsae Kt-23 in Complex with S-Adenosyl Methionine


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 5 of Sam-I Riboswitch Containing the T. Solenopsae Kt-23 in Complex with S-Adenosyl Methionine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K1112

b:89.0
occ:1.00
OP2 A:A10 2.8 87.2 1.0
OP2 A:U64 3.0 65.5 1.0
N7 A:G11 3.6 91.9 1.0
P A:A10 3.6 69.9 1.0
OP1 A:A10 3.7 60.5 1.0
BA A:BA1107 3.7 0.8 1.0
OP1 A:U64 3.9 56.3 1.0
N7 A:A10 3.9 82.2 1.0
P A:U64 3.9 65.1 1.0
K A:K1115 4.0 73.0 1.0
O5' A:A10 4.0 76.7 1.0
O6 A:G11 4.0 78.2 1.0
C8 A:A10 4.0 82.9 1.0
OP1 A:A62 4.3 81.7 1.0
C5 A:G11 4.4 86.6 1.0
C8 A:G11 4.5 87.1 1.0
C6 A:G11 4.6 78.9 1.0
OP2 A:G11 4.6 66.5 1.0
C5 A:A10 5.0 79.5 1.0

Potassium binding site 6 out of 8 in 4aob

Go back to Potassium Binding Sites List in 4aob
Potassium binding site 6 out of 8 in the Sam-I Riboswitch Containing the T. Solenopsae Kt-23 in Complex with S-Adenosyl Methionine


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 6 of Sam-I Riboswitch Containing the T. Solenopsae Kt-23 in Complex with S-Adenosyl Methionine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K1115

b:73.0
occ:1.00
OP2 A:G11 2.5 66.5 1.0
O A:HOH2005 2.8 51.9 1.0
OP1 A:A62 3.0 81.7 1.0
P A:G11 3.8 77.0 1.0
K A:K1112 4.0 89.0 1.0
O5' A:G11 4.3 72.3 1.0
P A:A62 4.5 76.8 1.0
OP1 A:G11 4.5 81.0 1.0
O5' A:A10 4.5 76.7 1.0
N7 A:G11 4.5 91.9 1.0
C8 A:G11 4.5 87.1 1.0
C5' A:A62 4.6 72.7 1.0
OP1 A:A10 4.7 60.5 1.0
O5' A:A62 5.0 75.7 1.0
O3' A:A61 5.0 68.6 1.0

Potassium binding site 7 out of 8 in 4aob

Go back to Potassium Binding Sites List in 4aob
Potassium binding site 7 out of 8 in the Sam-I Riboswitch Containing the T. Solenopsae Kt-23 in Complex with S-Adenosyl Methionine


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 7 of Sam-I Riboswitch Containing the T. Solenopsae Kt-23 in Complex with S-Adenosyl Methionine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K1131

b:82.4
occ:1.00
O4 A:U88 3.2 67.4 1.0
O4 A:U5 4.0 58.5 1.0
O4 A:U4 4.2 66.5 1.0
C4 A:U88 4.2 60.7 1.0
O6 A:G89 4.3 61.3 1.0
C5 A:U88 4.8 54.0 1.0
N6 A:A6 4.9 60.4 1.0

Potassium binding site 8 out of 8 in 4aob

Go back to Potassium Binding Sites List in 4aob
Potassium binding site 8 out of 8 in the Sam-I Riboswitch Containing the T. Solenopsae Kt-23 in Complex with S-Adenosyl Methionine


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 8 of Sam-I Riboswitch Containing the T. Solenopsae Kt-23 in Complex with S-Adenosyl Methionine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K1136

b:92.2
occ:1.00
OP2 A:U57 4.5 88.5 1.0
OP1 A:G56 4.7 83.7 1.0
O6 A:G58 4.8 61.9 1.0
N7 A:G58 5.0 62.9 1.0

Reference:

K.T.Schroeder, P.Daldrop, S.A.Mcphee, D.M.J.Lilley. Structure and Folding of A Rare, Natural Kink Turn in Rna with An A*A Pair at the 2B*2N Position. Rna V. 18 1257 2012.
ISSN: ISSN 1355-8382
PubMed: 22539525
DOI: 10.1261/RNA.032409.112
Page generated: Sun Dec 13 23:26:16 2020

Last articles

Zn in 7M6U
Zn in 7NNG
Zn in 7NEE
Zn in 7NEU
Zn in 7M3K
Zn in 7KWD
Zn in 7KYH
Zn in 7KNG
Zn in 7KY2
Zn in 7KYF
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy