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    PDB 1cs7-2spt
    PDB 2woh-4ds7
      2woh
      2x53
      3bnq
      3cc4
      3cc7
      3cce
      3ccj
      3ccl
      3ccm
      3ccq
      3ccr
      3ccs
      3ccu
      3ccv
      3cd6
      3cma
      3cme
      3cpw
      3e4p
      3e5c
      3e5e
      3e5f
      3ey3
      3g4s
      3g6e
      3g71
      3goo
      3i55
      3i56
      3i5a
      3ilg
      3lj0
      3ow2
      3p4a
      3p4c
      3pbx
      434d
      464d
      466d
      4ds7

Strontium in the structure of Crystal Structure of the Smk Box (Sam-III) Riboswitch With Sam (pdb 3e5c)






The binding sites of Strontium atom in the structure of Crystal Structure of the Smk Box (Sam-III) Riboswitch With Sam (pdb code 3e5c). This binding sites where shown with 5.0 Angstroms radius around Strontium atom.
The 3e5c structure was solved by C.LU, with X-Ray Crystallography technique, brief refinement statistics is given in the table below:
Resolution (A)19.9-2.2
Space groupI4122
a (A)97.806
b (A)97.806
c (A)87.138
alpha (°)90.00
beta (°)90.00
gamma (°)90.00
Rfactor (%)22.1
Rfree (%)22.7


Strontium Binding Sites:

Strontium binding site 1 out of 15 in 3e5c


Strontium binding site 1 out of 15 in 3e5c
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stereopicture of Strontium binding site 1 out of 15 in 3e5c
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Strontium in the PDB 3e5c. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Strontium atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: A8,

conact list:


AtomAtomDistance (A)
SrOP1 A:A84.67

interactive model:


Strontium binding site 2 out of 15 in 3e5c


Strontium binding site 2 out of 15 in 3e5c
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stereopicture of Strontium binding site 2 out of 15 in 3e5c
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 2 of Strontium in the PDB 3e5c. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Strontium atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: G49, A: G50, A: Hoh251, A: Hoh262, A: Hoh265, A: Hoh277,

conact list:


AtomAtomDistance (A)
SrN7 A:G494.67
SrO6 A:G494.48
SrN7 A:G504.70
SrO6 A:G504.33
SrO A:Hoh2512.83
SrO A:Hoh2624.44
SrO A:Hoh2654.91
SrO A:Hoh2774.45

interactive model:


Strontium binding site 3 out of 15 in 3e5c


Strontium binding site 3 out of 15 in 3e5c
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stereopicture of Strontium binding site 3 out of 15 in 3e5c
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 3 of Strontium in the PDB 3e5c. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Strontium atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: G11, A: G12, A: G28, A: Hoh259,

conact list:


AtomAtomDistance (A)
SrN7 A:G114.47
SrO6 A:G114.50
SrN7 A:G124.96
SrO6 A:G124.48
SrO6 A:G284.79
SrO A:Hoh2594.67

interactive model:


Strontium binding site 4 out of 15 in 3e5c


Strontium binding site 4 out of 15 in 3e5c
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stereopicture of Strontium binding site 4 out of 15 in 3e5c
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 4 of Strontium in the PDB 3e5c. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Strontium atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: C41, A: G42, A: A45, A: G46, A: G47, A: Hoh223, A: Hoh231, A: Hoh248,

conact list:


AtomAtomDistance (A)
SrN4 A:C414.86
SrC6 A:G424.83
SrN1 A:G424.61
SrO6 A:G424.31
SrOP2 A:A454.75
SrC8 A:G464.03
SrC6 A:G463.55
SrN1 A:G464.92
SrC5 A:G463.52
SrN7 A:G462.86
SrC4 A:G464.84
SrO6 A:G462.93
SrN7 A:G474.86
SrO6 A:G474.89
SrO A:Hoh2233.05
SrO A:Hoh2313.32
SrO A:Hoh2484.71

interactive model:


Strontium binding site 5 out of 15 in 3e5c


Strontium binding site 5 out of 15 in 3e5c
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stereopicture of Strontium binding site 5 out of 15 in 3e5c
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 5 of Strontium in the PDB 3e5c. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Strontium atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: G42, A: A44, A: Hoh221,

conact list:


AtomAtomDistance (A)
SrN7 A:G424.42
SrO6 A:G424.82
SrOP1 A:A444.47
SrO A:Hoh2213.12

interactive model:


Strontium binding site 6 out of 15 in 3e5c


Strontium binding site 6 out of 15 in 3e5c
Click to enlarge
stereopicture of Strontium binding site 6 out of 15 in 3e5c
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 6 of Strontium in the PDB 3e5c. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Strontium atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: G19, A: A21, A: Sr211,

conact list:


AtomAtomDistance (A)
SrO6 A:G194.40
SrOP1 A:A213.47
SrP A:A214.69
SrSR A:Sr2114.44

interactive model:


Strontium binding site 7 out of 15 in 3e5c


Strontium binding site 7 out of 15 in 3e5c
Click to enlarge
stereopicture of Strontium binding site 7 out of 15 in 3e5c
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 7 of Strontium in the PDB 3e5c. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Strontium atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: C5, A: C6, A: G7, A: G28, A: A29, A: Hoh219, A: Hoh222, A: Hoh225, A: Hoh260, A: Hoh282,

conact list:


AtomAtomDistance (A)
SrO3' A:C54.96
SrOP2 A:C54.90
SrOP1 A:C64.78
SrC5 A:C64.83
SrP A:C63.97
SrOP2 A:C62.56
SrO5' A:C64.57
SrN7 A:G74.86
SrO6 A:G74.84
SrOP1 A:G284.92
SrOP2 A:A294.38
SrO A:Hoh2192.98
SrO A:Hoh2224.03
SrO A:Hoh2254.91
SrO A:Hoh2604.59
SrO A:Hoh2822.55

interactive model:


Strontium binding site 8 out of 15 in 3e5c


Strontium binding site 8 out of 15 in 3e5c
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stereopicture of Strontium binding site 8 out of 15 in 3e5c
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 8 of Strontium in the PDB 3e5c. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Strontium atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: G31, A: C33, A: U34, A: U35, A: G36, A: Hoh220, A: Hoh224,

conact list:


AtomAtomDistance (A)
SrC8 A:G314.76
SrOP2 A:G314.42
SrOP2 A:C334.63
SrOP1 A:U344.39
SrC5 A:U344.85
SrP A:U344.18
SrOP2 A:U343.03
SrOP2 A:U355.00
SrC6 A:G363.90
SrC5 A:G364.39
SrN7 A:G364.13
SrO6 A:G362.84
SrO A:Hoh2204.48
SrO A:Hoh2242.41

interactive model:


Strontium binding site 9 out of 15 in 3e5c


Strontium binding site 9 out of 15 in 3e5c
Click to enlarge
stereopicture of Strontium binding site 9 out of 15 in 3e5c
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 9 of Strontium in the PDB 3e5c. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Strontium atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: A8, A: A38,

conact list:


AtomAtomDistance (A)
SrN3 A:A84.61
SrO2' A:A84.36
SrOP1 A:A382.83
SrP A:A383.85
SrOP2 A:A383.93
SrC5' A:A384.66
SrO5' A:A384.77

interactive model:


Strontium binding site 10 out of 15 in 3e5c


Strontium binding site 10 out of 15 in 3e5c
Click to enlarge
stereopicture of Strontium binding site 10 out of 15 in 3e5c
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 10 of Strontium in the PDB 3e5c. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Strontium atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: G36, A: U37, A: G46, A: Hoh248,

conact list:


AtomAtomDistance (A)
SrOP1 A:G364.76
SrOP1 A:U374.77
SrOP2 A:U374.88
SrOP2 A:G464.65
SrO A:Hoh2484.77

interactive model:


Strontium binding site 11 out of 15 in 3e5c


Strontium binding site 11 out of 15 in 3e5c
Click to enlarge
stereopicture of Strontium binding site 11 out of 15 in 3e5c
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 11 of Strontium in the PDB 3e5c. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Strontium atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: G18, A: G19, A: A21, A: Sr206,

conact list:


AtomAtomDistance (A)
SrC8 A:G184.94
SrN7 A:G184.44
SrC8 A:G193.92
SrC6 A:G193.93
SrC5 A:G193.71
SrN7 A:G192.91
SrC4 A:G194.94
SrOP2 A:G194.88
SrO6 A:G193.47
SrOP2 A:A214.69
SrSR A:Sr2064.44

interactive model:


Strontium binding site 12 out of 15 in 3e5c


Strontium binding site 12 out of 15 in 3e5c
Click to enlarge
stereopicture of Strontium binding site 12 out of 15 in 3e5c
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 12 of Strontium in the PDB 3e5c. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Strontium atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: Gtp1, A: Hoh233, A: Hoh275, A: Hoh279, A: Hoh284,

conact list:


AtomAtomDistance (A)
SrPA A:Gtp13.49
SrO5' A:Gtp14.40
SrO2B A:Gtp13.13
SrO3A A:Gtp13.32
SrO2A A:Gtp12.65
SrO1B A:Gtp13.33
SrPB A:Gtp13.41
SrC5' A:Gtp14.27
SrO1A A:Gtp14.70
SrO A:Hoh2334.33
SrO A:Hoh2753.43
SrO A:Hoh2794.68
SrO A:Hoh2843.72

interactive model:


Strontium binding site 13 out of 15 in 3e5c


Strontium binding site 13 out of 15 in 3e5c
Click to enlarge
stereopicture of Strontium binding site 13 out of 15 in 3e5c
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 13 of Strontium in the PDB 3e5c. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Strontium atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: U14, A: G15, A: G16, A: C25, A: C26, A: A27,

conact list:


AtomAtomDistance (A)
SrN3 A:U144.59
SrC5 A:U144.11
SrC4 A:U143.52
SrO4 A:U142.53
SrC6 A:G154.07
SrC5 A:G154.57
SrN7 A:G154.26
SrO6 A:G153.02
SrO6 A:G164.17
SrN4 A:C254.31
SrN4 A:C264.24
SrN6 A:A274.81

interactive model:


Strontium binding site 14 out of 15 in 3e5c


Strontium binding site 14 out of 15 in 3e5c
Click to enlarge
stereopicture of Strontium binding site 14 out of 15 in 3e5c
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 14 of Strontium in the PDB 3e5c. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Strontium atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: A8, A: A9, A: G31, A: Hoh259, A: Hoh261,

conact list:


AtomAtomDistance (A)
SrOP2 A:A84.42
SrC8 A:A94.80
SrC5 A:A94.88
SrN6 A:A94.64
SrN7 A:A93.99
SrOP2 A:A94.53
SrC6 A:G314.95
SrN1 A:G314.53
SrO6 A:G314.44
SrO A:Hoh2594.85
SrO A:Hoh2614.71

interactive model:


Strontium binding site 15 out of 15 in 3e5c


Strontium binding site 15 out of 15 in 3e5c
Click to enlarge
stereopicture of Strontium binding site 15 out of 15 in 3e5c
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 15 of Strontium in the PDB 3e5c. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Strontium atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: U37, A: A38, A: A39, A: C40, A: Hoh271,

conact list:


AtomAtomDistance (A)
SrC3' A:U374.53
SrO3' A:U374.08
SrOP1 A:A384.82
SrP A:A383.53
SrOP2 A:A382.41
SrC5' A:A384.85
SrO5' A:A383.70
SrP A:A394.73
SrN7 A:A394.58
SrOP2 A:A393.27
SrN4 A:C404.85
SrO A:Hoh2713.88

interactive model:




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