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Zinc in PDB 1i94: Crystal Structures of the Small Ribosomal Subunit with Tetracycline, Edeine and IF3

Protein crystallography data

The structure of Crystal Structures of the Small Ribosomal Subunit with Tetracycline, Edeine and IF3, PDB code: 1i94 was solved by M.Pioletti, F.Schluenzen, J.Harms, R.Zarivach, M.Gluehmann, H.Avila, H.Bartels, C.Jacobi, T.Hartsch, A.Yonath, F.Franceschi, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 35.00 / 3.20
Space group P 41 21 2
Cell size a, b, c (Å), α, β, γ (°) 406.300, 406.300, 173.100, 90.00, 90.00, 90.00
R / Rfree (%) 20.3 / 24.5

Other elements in 1i94:

The structure of Crystal Structures of the Small Ribosomal Subunit with Tetracycline, Edeine and IF3 also contains other interesting chemical elements:

Tungsten (W) 252 atoms
Magnesium (Mg) 75 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structures of the Small Ribosomal Subunit with Tetracycline, Edeine and IF3 (pdb code 1i94). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Crystal Structures of the Small Ribosomal Subunit with Tetracycline, Edeine and IF3, PDB code: 1i94:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 1i94

Go back to Zinc Binding Sites List in 1i94
Zinc binding site 1 out of 2 in the Crystal Structures of the Small Ribosomal Subunit with Tetracycline, Edeine and IF3


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structures of the Small Ribosomal Subunit with Tetracycline, Edeine and IF3 within 5.0Å range:
probe atom residue distance (Å) B Occ
N:Zn76

b:49.6
occ:1.00
CB N:CYS43 2.3 72.2 1.0
CB N:CYS40 2.7 86.9 1.0
N N:CYS40 2.9 86.9 1.0
CA N:CYS40 3.3 86.9 1.0
CB N:CYS24 3.4 0.1 1.0
CB N:CYS27 3.5 96.7 1.0
N N:CYS27 3.5 96.7 1.0
CA N:CYS43 3.6 72.2 1.0
O N:CYS40 3.6 86.9 1.0
CB N:ARG26 3.8 90.7 1.0
N N:CYS43 3.8 72.2 1.0
C N:CYS40 4.0 86.9 1.0
C N:LEU39 4.0 87.9 1.0
CA N:CYS27 4.1 96.7 1.0
CA N:LEU39 4.3 87.9 1.0
C N:CYS43 4.3 72.2 1.0
C N:ARG26 4.4 90.7 1.0
N N:ARG26 4.4 90.7 1.0
CA N:CYS24 4.4 0.1 1.0
CA N:ARG26 4.4 90.7 1.0
O N:CYS43 4.5 72.2 1.0
N N:VAL25 4.6 0.5 1.0
CB N:LEU39 4.7 87.9 1.0
C N:CYS24 4.8 0.1 1.0
N N:GLY28 4.9 92.9 1.0
C N:VAL25 5.0 0.5 1.0

Zinc binding site 2 out of 2 in 1i94

Go back to Zinc Binding Sites List in 1i94
Zinc binding site 2 out of 2 in the Crystal Structures of the Small Ribosomal Subunit with Tetracycline, Edeine and IF3


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structures of the Small Ribosomal Subunit with Tetracycline, Edeine and IF3 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn212

b:49.6
occ:1.00
O D:CYS31 3.5 0.3 1.0
CB D:CYS12 3.5 80.3 1.0
CB D:CYS9 3.6 88.8 1.0
CB D:CYS31 3.7 0.3 1.0
CA D:CYS9 3.8 88.8 1.0
CA D:CYS31 4.1 0.3 1.0
O D:LEU19 4.1 0.8 1.0
C D:CYS31 4.2 0.3 1.0
CB D:CYS26 4.4 0.2 1.0
N D:CYS9 4.5 88.8 1.0
C D:CYS9 4.9 88.8 1.0
O D:CYS9 4.9 88.8 1.0

Reference:

M.Pioletti, F.Schlunzen, J.Harms, R.Zarivach, M.Gluhmann, H.Avila, A.Bashan, H.Bartels, T.Auerbach, C.Jacobi, T.Hartsch, A.Yonath, F.Franceschi. Crystal Structures of Complexes of the Small Ribosomal Subunit with Tetracycline, Edeine and IF3. Embo J. V. 20 1829 2001.
ISSN: ISSN 0261-4189
PubMed: 11296217
DOI: 10.1093/EMBOJ/20.8.1829
Page generated: Wed Dec 16 02:52:29 2020

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