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Zinc in PDB 2uxb: Crystal Structure of An Extended Trna Anticodon Stem Loop in Complex with Its Cognate Mrna Gggu in the Context of the Thermus Thermophilus 30S Subunit.

Protein crystallography data

The structure of Crystal Structure of An Extended Trna Anticodon Stem Loop in Complex with Its Cognate Mrna Gggu in the Context of the Thermus Thermophilus 30S Subunit., PDB code: 2uxb was solved by C.M.Dunham, M.Selmer, S.S.Phelps, A.C.Kelley, T.Suzuki, S.Joseph, V.Ramakrishnan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.88 / 3.10
Space group P 41 21 2
Cell size a, b, c (Å), α, β, γ (°) 401.950, 401.950, 174.086, 90.00, 90.00, 90.00
R / Rfree (%) 29.5 / 32.8

Other elements in 2uxb:

The structure of Crystal Structure of An Extended Trna Anticodon Stem Loop in Complex with Its Cognate Mrna Gggu in the Context of the Thermus Thermophilus 30S Subunit. also contains other interesting chemical elements:

Magnesium (Mg) 131 atoms
Potassium (K) 10 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of An Extended Trna Anticodon Stem Loop in Complex with Its Cognate Mrna Gggu in the Context of the Thermus Thermophilus 30S Subunit. (pdb code 2uxb). 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 Structure of An Extended Trna Anticodon Stem Loop in Complex with Its Cognate Mrna Gggu in the Context of the Thermus Thermophilus 30S Subunit., PDB code: 2uxb:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 2uxb

Go back to Zinc Binding Sites List in 2uxb
Zinc binding site 1 out of 2 in the Crystal Structure of An Extended Trna Anticodon Stem Loop in Complex with Its Cognate Mrna Gggu in the Context of the Thermus Thermophilus 30S Subunit.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of An Extended Trna Anticodon Stem Loop in Complex with Its Cognate Mrna Gggu in the Context of the Thermus Thermophilus 30S Subunit. within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Zn3143

b:0.2
occ:1.00
SG D:CYS26 2.4 76.8 1.0
SG D:CYS31 2.4 60.6 1.0
SG D:CYS9 2.4 35.4 1.0
O D:TYR20 3.0 84.6 1.0
CA D:TYR20 3.1 84.4 1.0
O D:LEU19 3.1 0.6 1.0
CB D:CYS26 3.5 83.4 1.0
C D:TYR20 3.5 84.6 1.0
SG D:CYS12 3.5 93.3 1.0
C D:LEU19 3.6 0.7 1.0
N D:TYR20 3.6 83.7 1.0
CB D:CYS31 3.7 62.7 1.0
CB D:CYS9 4.1 43.4 1.0
CA D:CYS26 4.2 0.5 1.0
CB D:TYR20 4.4 0.0 1.0
CA D:CYS9 4.5 0.6 1.0
CA D:CYS31 4.5 0.0 1.0
CG D:LYS22 4.7 0.1 1.0
N D:LEU19 4.7 0.2 1.0
O D:CYS31 4.8 0.4 1.0
CA D:LEU19 4.8 0.2 1.0
N D:LEU21 4.8 0.9 1.0
O D:ARG25 4.9 91.3 1.0
CB D:CYS12 4.9 93.0 1.0
N D:CYS9 4.9 0.5 1.0

Zinc binding site 2 out of 2 in 2uxb

Go back to Zinc Binding Sites List in 2uxb
Zinc binding site 2 out of 2 in the Crystal Structure of An Extended Trna Anticodon Stem Loop in Complex with Its Cognate Mrna Gggu in the Context of the Thermus Thermophilus 30S Subunit.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of An Extended Trna Anticodon Stem Loop in Complex with Its Cognate Mrna Gggu in the Context of the Thermus Thermophilus 30S Subunit. within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Zn3144

b:97.5
occ:1.00
SG N:CYS43 2.4 39.0 1.0
SG N:CYS27 2.5 84.7 1.0
CB N:CYS27 2.5 85.7 1.0
NH1 N:ARG29 2.9 99.5 1.0
O N:ARG26 2.9 0.2 1.0
SG N:CYS40 3.1 64.2 1.0
SG N:CYS24 3.2 0.8 1.0
CB N:CYS24 3.4 0.6 1.0
C N:ARG26 3.6 0.9 1.0
CB N:CYS40 3.6 65.8 1.0
CA N:CYS27 3.8 0.4 1.0
CB N:CYS43 3.9 45.3 1.0
N N:CYS27 3.9 0.0 1.0
CZ N:ARG29 4.1 0.3 1.0
N3 A:G1202 4.4 84.3 1.0
N N:GLY28 4.4 0.3 1.0
N2 A:G1202 4.4 84.3 1.0
C N:CYS27 4.5 0.1 1.0
NH2 N:ARG29 4.5 99.9 1.0
CA N:ARG26 4.6 0.8 1.0
CG2 N:ILE42 4.7 88.4 1.0
N N:CYS43 4.8 44.6 1.0
CA N:CYS24 4.8 0.2 1.0
C2 A:G1202 4.9 84.3 1.0
O2' A:G1202 4.9 95.0 1.0
CA N:CYS43 4.9 41.6 1.0
N N:ARG26 4.9 0.3 1.0
CA N:CYS40 4.9 71.4 1.0
CB N:ARG26 4.9 92.0 1.0

Reference:

C.M.Dunham, M.Selmer, S.S.Phelps, A.C.Kelley, T.Suzuki, S.Joseph, V.Ramakrishnan. Structures of Trnas with An Expanded Anticodon Loop in the Decoding Center of the 30S Ribosomal Subunit. Rna V. 13 817 2007.
ISSN: ISSN 1355-8382
PubMed: 17416634
DOI: 10.1261/RNA.367307
Page generated: Wed Dec 16 03:53:57 2020

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