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Zinc in the structure of Structure Of The Ribosome Recycling Factor Bound to The Thermus Thermophilus 70S Ribosome With Mrna, Asl-Phe And Trna-Fmet (Part 3 of 4). This File Contains the 30S Subunit, Mrna, P-Site Asl, E-Site Trna and Rrf For Molecule 2. (pdb 2v48)

The binding sites of Zinc atom in the structure of Structure Of The Ribosome Recycling Factor Bound to The Thermus Thermophilus 70S Ribosome With Mrna, Asl-Phe And Trna-Fmet (Part 3 of 4). This File Contains the 30S Subunit, Mrna, P-Site Asl, E-Site Trna and Rrf For Molecule 2. (pdb code 2v48). This binding sites where shown with 5.0 Angstroms radius around Zinc atom.
The 2v48 structure was solved by A.WEIXLBAUMER, S.PETRY, C.M.DUNHAM, M.SELMER, A.C.KELLEY, V.RAMAKRISHNAN, with X-Ray Crystallography technique, brief refinement statistics is given in the table below:
Resolution (A)20.0-3.8
Space groupP212121
a (A)212.414
b (A)450.107
c (A)630.540
alpha (°)90.00
beta (°)90.00
gamma (°)90.00
Rfactor (%)26.5
Rfree (%)32.6

Zinc Binding Sites:

Zinc binding site 1 out of 2 in 2v48


Zinc binding site 1 out of 2 in 2v48
Click to enlarge
stereopicture of Zinc binding site 1 out of 2 in 2v48
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Zinc in the PDB 2v48. 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: Lys22, D: Cys26, D: Cys31,

conact list:


AtomAtomDistance (A)
ZnCB D:Cys93.90
ZnSG D:Cys92.37
ZnCA D:Cys94.41
ZnCB D:Cys123.09
ZnSG D:Cys122.30
ZnCA D:Cys124.61
ZnCE D:Lys184.51
ZnCG D:Lys184.98
ZnNZ D:Lys184.78
ZnO D:Leu193.85
ZnC D:Leu194.85
ZnN D:Lys224.63
ZnCB D:Lys223.66
ZnCE D:Lys223.33
ZnCD D:Lys222.03
ZnCG D:Lys222.50
ZnCA D:Lys224.77
ZnNZ D:Lys224.49
ZnN D:Cys264.83
ZnCB D:Cys263.40
ZnSG D:Cys261.90
ZnCA D:Cys264.04
ZnO D:Cys314.07
ZnCB D:Cys312.98
ZnSG D:Cys312.43
ZnC D:Cys314.46
ZnCA D:Cys313.91

interactive model:


Zinc binding site 2 out of 2 in 2v48


Zinc binding site 2 out of 2 in 2v48
Click to enlarge
stereopicture of Zinc binding site 2 out of 2 in 2v48
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 2 of Zinc in the PDB 2v48. 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: Arg26, N: Cys27, N: Leu39, N: Cys40, N: Arg41, N: Ile42, N: Cys43, N: Leu44,

conact list:


AtomAtomDistance (A)
ZnN2 A:G12024.69
ZnCB N:Cys244.17
ZnSG N:Cys243.18
ZnCB N:Arg264.45
ZnO N:Cys274.82
ZnN N:Cys274.34
ZnCB N:Cys273.73
ZnSG N:Cys272.36
ZnCA N:Cys274.66
ZnO N:Leu394.81
ZnCB N:Leu394.33
ZnCD2 N:Leu394.46
ZnC N:Leu393.79
ZnCA N:Leu394.25
ZnO N:Cys403.87
ZnN N:Cys402.58
ZnCB N:Cys402.26
ZnSG N:Cys402.12
ZnC N:Cys403.47
ZnCA N:Cys402.87
ZnN N:Arg414.15
ZnN N:Ile425.00
ZnC N:Ile424.80
ZnN N:Cys433.56
ZnCB N:Cys432.32
ZnSG N:Cys432.49
ZnC N:Cys434.38
ZnCA N:Cys433.49
ZnN N:Leu444.21

interactive model:




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