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Zinc in the structure of Structure Of The Thermus Thermophilus Ribosome Complexed With Erythromycin. This File Contains The 30S Subunit of One 70S Ribosome. the Entire Crystal Structure Contains Two 70S Ribosomes. (pdb 3ohd)

The binding sites of Zinc atom in the structure of Structure Of The Thermus Thermophilus Ribosome Complexed With Erythromycin. This File Contains The 30S Subunit of One 70S Ribosome. the Entire Crystal Structure Contains Two 70S Ribosomes. (pdb code 3ohd). This binding sites where shown with 5.0 Angstroms radius around Zinc atom.
The 3ohd structure was solved by D.P.BULKLEY, C.A.INNIS, G.BLAHA, T.A.STEITZ, with X-Ray Crystallography technique, brief refinement statistics is given in the table below:
Resolution (A)49.6-3.0
Space groupP212121
a (A)210.470
b (A)447.960
c (A)620.170
alpha (°)90.00
beta (°)90.00
gamma (°)90.00
Rfactor (%)24.3
Rfree (%)27.8

Zinc Binding Sites:

Zinc binding site 1 out of 2 in 3ohd


Zinc binding site 1 out of 2 in 3ohd
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stereopicture of Zinc binding site 1 out of 2 in 3ohd
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Zinc in the PDB 3ohd. 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: D: Cys9, D: Cys12, D: Lys18, D: Leu19, D: Tyr20, D: Lys22, D: Cys26, D: Cys31, D: Met33,

conact list:


AtomAtomDistance (A)
ZnCB D:Cys94.04
ZnSG D:Cys92.29
ZnCA D:Cys94.57
ZnCB D:Cys123.48
ZnSG D:Cys122.12
ZnCA D:Cys124.88
ZnCE D:Lys184.16
ZnCD D:Lys184.89
ZnCG D:Lys184.47
ZnO D:Leu192.88
ZnN D:Leu194.82
ZnC D:Leu194.11
ZnN D:Tyr204.98
ZnCA D:Tyr204.97
ZnCB D:Lys224.93
ZnCD D:Lys224.17
ZnCG D:Lys224.67
ZnCB D:Cys263.34
ZnSG D:Cys261.90
ZnCA D:Cys264.21
ZnO D:Cys314.07
ZnCB D:Cys313.92
ZnSG D:Cys312.24
ZnC D:Cys314.83
ZnCA D:Cys314.67
ZnCB D:Met334.98

interactive model:


Zinc binding site 2 out of 2 in 3ohd


Zinc binding site 2 out of 2 in 3ohd
Click to enlarge
stereopicture of Zinc binding site 2 out of 2 in 3ohd
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 2 of Zinc in the PDB 3ohd. 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: A: G1202, N: Cys24, N: Cys27, N: Arg29, N: Leu39, N: Cys40, N: Ile42, N: Cys43,

conact list:


AtomAtomDistance (A)
ZnN3 A:G12024.99
ZnN2 A:G12024.53
ZnCB N:Cys243.98
ZnSG N:Cys242.52
ZnO N:Cys274.68
ZnN N:Cys274.40
ZnCB N:Cys273.95
ZnSG N:Cys272.52
ZnCA N:Cys274.73
ZnCB N:Arg294.82
ZnCD N:Arg294.92
ZnC N:Leu394.68
ZnCA N:Leu394.89
ZnO N:Cys404.47
ZnN N:Cys403.57
ZnCB N:Cys403.55
ZnSG N:Cys402.48
ZnC N:Cys404.43
ZnCA N:Cys404.02
ZnN N:Ile424.98
ZnCB N:Ile424.80
ZnC N:Ile424.72
ZnCG1 N:Ile424.89
ZnN N:Cys433.56
ZnCB N:Cys432.86
ZnSG N:Cys432.75
ZnCA N:Cys433.78

interactive model:




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