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Zinc in the structure of Atomic Model of An Infectious Rotavirus Particle (pdb 3n09)

The binding sites of Zinc atom in the structure of Atomic Model of An Infectious Rotavirus Particle (pdb code 3n09). This binding sites where shown with 5.0 Angstroms radius around Zinc atom.
The 3n09 structure was solved by E.C.SETTEMBRE, J.Z.CHEN, P.R.DORMITZER, N.GRIGORIEFF, S.C HARRISON, with Electron Microscopy technique.

Zinc Binding Sites:

Zinc binding site 1 out of 5 in 3n09


Zinc binding site 1 out of 5 in 3n09
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stereopicture of Zinc binding site 1 out of 5 in 3n09
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Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Zinc in the PDB 3n09. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Zinc atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: C: His153, C: Lys154, D: His153, D: Lys154, E: His153, E: Lys154,

conact list:


AtomAtomDistance (A)
ZnNE2 C:His1532.55
ZnND1 C:His1534.22
ZnCD2 C:His1533.84
ZnCE1 C:His1532.93
ZnCG C:His1534.69
ZnCE C:Lys1544.73
ZnCD C:Lys1543.91
ZnCG C:Lys1544.92
ZnNZ C:Lys1544.42
ZnNE2 D:His1532.61
ZnND1 D:His1534.42
ZnCD2 D:His1533.74
ZnCE1 D:His1533.23
ZnCG D:His1534.70
ZnCE D:Lys1544.59
ZnCD D:Lys1543.54
ZnCG D:Lys1544.49
ZnNZ D:Lys1544.40
ZnNE2 E:His1532.83
ZnND1 E:His1534.64
ZnCD2 E:His1534.06
ZnCE1 E:His1533.36
ZnCD E:Lys1544.27

interactive model:


Zinc binding site 2 out of 5 in 3n09


Zinc binding site 2 out of 5 in 3n09
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stereopicture of Zinc binding site 2 out of 5 in 3n09
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 2 of Zinc in the PDB 3n09. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Zinc atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: F: His153, F: Lys154, G: His153, G: Lys154, H: His153, H: Lys154,

conact list:


AtomAtomDistance (A)
ZnNE2 F:His1532.36
ZnND1 F:His1534.15
ZnCD2 F:His1533.59
ZnCE1 F:His1532.90
ZnCG F:His1534.51
ZnCE F:Lys1544.52
ZnCD F:Lys1543.76
ZnCG F:Lys1544.78
ZnNZ F:Lys1544.23
ZnNE2 G:His1532.71
ZnND1 G:His1534.61
ZnCD2 G:His1533.85
ZnCE1 G:His1533.39
ZnCG G:His1534.86
ZnCD G:Lys1543.98
ZnCG G:Lys1544.92
ZnNZ G:Lys1544.75
ZnNE2 H:His1532.54
ZnND1 H:His1534.26
ZnCD2 H:His1533.83
ZnCE1 H:His1532.96
ZnCG H:His1534.70
ZnCD H:Lys1544.15
ZnCG H:Lys1544.95

interactive model:


Zinc binding site 3 out of 5 in 3n09


Zinc binding site 3 out of 5 in 3n09
Click to enlarge
stereopicture of Zinc binding site 3 out of 5 in 3n09
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 3 of Zinc in the PDB 3n09. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Zinc atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: I: His153, I: Lys154, J: His153, J: Lys154, K: His153, K: Lys154,

conact list:


AtomAtomDistance (A)
ZnNE2 I:His1532.42
ZnND1 I:His1534.35
ZnCD2 I:His1533.57
ZnCE1 I:His1533.13
ZnCG I:His1534.59
ZnCE I:Lys1544.76
ZnCD I:Lys1544.10
ZnNZ I:Lys1544.39
ZnNE2 J:His1532.56
ZnND1 J:His1534.42
ZnCD2 J:His1533.78
ZnCE1 J:His1533.16
ZnCG J:His1534.75
ZnCD J:Lys1544.20
ZnNE2 K:His1532.16
ZnND1 K:His1533.90
ZnCD2 K:His1533.45
ZnCE1 K:His1532.63
ZnCG K:His1534.32
ZnCD K:Lys1543.88
ZnCG K:Lys1544.62

interactive model:


Zinc binding site 4 out of 5 in 3n09


Zinc binding site 4 out of 5 in 3n09
Click to enlarge
stereopicture of Zinc binding site 4 out of 5 in 3n09
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 4 of Zinc in the PDB 3n09. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Zinc atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: L: His153, L: Lys154, M: His153, M: Lys154, N: His153, N: Lys154, N: Ala338,

conact list:


AtomAtomDistance (A)
ZnNE2 L:His1533.12
ZnND1 L:His1535.00
ZnCD2 L:His1534.31
ZnCE1 L:His1533.73
ZnCD L:Lys1544.54
ZnNZ L:Lys1544.57
ZnNE2 M:His1532.61
ZnND1 M:His1534.17
ZnCD2 M:His1533.92
ZnCE1 M:His1532.88
ZnCG M:His1534.71
ZnCE M:Lys1544.89
ZnCD M:Lys1543.69
ZnCG M:Lys1544.49
ZnNZ M:Lys1544.81
ZnNE2 N:His1532.55
ZnND1 N:His1534.35
ZnCD2 N:His1533.72
ZnCE1 N:His1533.13
ZnCG N:His1534.66
ZnCB N:Lys1544.93
ZnCE N:Lys1544.52
ZnCD N:Lys1543.47
ZnCG N:Lys1544.40
ZnNZ N:Lys1544.38
ZnCB N:Ala3384.98

interactive model:


Zinc binding site 5 out of 5 in 3n09


Zinc binding site 5 out of 5 in 3n09
Click to enlarge
stereopicture of Zinc binding site 5 out of 5 in 3n09
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 5 of Zinc in the PDB 3n09. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Zinc atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: O: His153,

conact list:


AtomAtomDistance (A)
ZnNE2 O:His1532.96
ZnND1 O:His1533.74
ZnCD2 O:His1533.46
ZnCE1 O:His1533.18
ZnCG O:His1533.92

interactive model:




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