Atomistry » Mercury » PDB 1yu1-2epm » 2bte
Atomistry »
  Mercury »
    PDB 1yu1-2epm »
      2bte »

Mercury in PDB 2bte: Thermus Thermophilus Leucyl-Trna Synthetase Complexed with with A Trnaleu Transcript in the Post-Editing Conformation and A Post-Transfer Editing Substrate Analogue

Enzymatic activity of Thermus Thermophilus Leucyl-Trna Synthetase Complexed with with A Trnaleu Transcript in the Post-Editing Conformation and A Post-Transfer Editing Substrate Analogue

All present enzymatic activity of Thermus Thermophilus Leucyl-Trna Synthetase Complexed with with A Trnaleu Transcript in the Post-Editing Conformation and A Post-Transfer Editing Substrate Analogue:
6.1.1.4;

Protein crystallography data

The structure of Thermus Thermophilus Leucyl-Trna Synthetase Complexed with with A Trnaleu Transcript in the Post-Editing Conformation and A Post-Transfer Editing Substrate Analogue, PDB code: 2bte was solved by S.Cusack, M.Tukalo, A.Yaremchuk, R.Fukunaga, S.Yokoyama, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 24.89 / 2.9
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 204.121, 125.705, 175.432, 90.00, 120.86, 90.00
R / Rfree (%) 21.7 / 25.3

Other elements in 2bte:

The structure of Thermus Thermophilus Leucyl-Trna Synthetase Complexed with with A Trnaleu Transcript in the Post-Editing Conformation and A Post-Transfer Editing Substrate Analogue also contains other interesting chemical elements:

Zinc (Zn) 4 atoms

Mercury Binding Sites:

The binding sites of Mercury atom in the Thermus Thermophilus Leucyl-Trna Synthetase Complexed with with A Trnaleu Transcript in the Post-Editing Conformation and A Post-Transfer Editing Substrate Analogue (pdb code 2bte). This binding sites where shown within 5.0 Angstroms radius around Mercury atom.
In total 2 binding sites of Mercury where determined in the Thermus Thermophilus Leucyl-Trna Synthetase Complexed with with A Trnaleu Transcript in the Post-Editing Conformation and A Post-Transfer Editing Substrate Analogue, PDB code: 2bte:
Jump to Mercury binding site number: 1; 2;

Mercury binding site 1 out of 2 in 2bte

Go back to Mercury Binding Sites List in 2bte
Mercury binding site 1 out of 2 in the Thermus Thermophilus Leucyl-Trna Synthetase Complexed with with A Trnaleu Transcript in the Post-Editing Conformation and A Post-Transfer Editing Substrate Analogue


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 1 of Thermus Thermophilus Leucyl-Trna Synthetase Complexed with with A Trnaleu Transcript in the Post-Editing Conformation and A Post-Transfer Editing Substrate Analogue within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Hg1879

b:0.5
occ:1.00
SG A:CYS128 2.6 94.3 1.0
OH A:TYR102 3.4 65.0 1.0
CE2 A:TYR102 3.6 64.8 1.0
C A:CYS128 3.6 71.2 1.0
O A:CYS128 3.6 71.9 1.0
CB A:CYS128 3.7 78.4 1.0
CG A:GLU129 3.7 74.2 1.0
N A:GLU129 3.8 70.1 1.0
CZ A:TYR102 3.8 66.2 1.0
CA A:GLU129 4.0 70.0 1.0
CH2 A:TRP430 4.1 65.1 1.0
CZ2 A:TRP430 4.2 64.9 1.0
CA A:CYS128 4.2 71.9 1.0
CB A:GLU129 4.5 70.8 1.0
CD2 A:TYR102 4.7 66.6 1.0
CG A:LYS98 4.9 70.5 1.0
CG2 A:THR126 4.9 50.5 1.0
CD A:GLU129 5.0 76.5 1.0
N A:CYS128 5.0 68.9 1.0

Mercury binding site 2 out of 2 in 2bte

Go back to Mercury Binding Sites List in 2bte
Mercury binding site 2 out of 2 in the Thermus Thermophilus Leucyl-Trna Synthetase Complexed with with A Trnaleu Transcript in the Post-Editing Conformation and A Post-Transfer Editing Substrate Analogue


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 2 of Thermus Thermophilus Leucyl-Trna Synthetase Complexed with with A Trnaleu Transcript in the Post-Editing Conformation and A Post-Transfer Editing Substrate Analogue within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Hg1879

b:0.7
occ:1.00
SG D:CYS128 2.5 0.0 1.0
O D:CYS128 3.3 0.3 1.0
C D:CYS128 3.6 0.1 1.0
CB D:CYS128 3.7 1.0 1.0
OH D:TYR102 3.7 0.8 1.0
CE2 D:TYR102 3.7 0.9 1.0
CG D:GLU129 3.9 0.0 1.0
N D:GLU129 4.0 0.3 1.0
CZ D:TYR102 4.0 0.4 1.0
CA D:GLU129 4.2 1.0 1.0
CA D:CYS128 4.2 0.3 1.0
CH2 D:TRP430 4.3 80.9 1.0
CZ2 D:TRP430 4.4 82.7 1.0
CB D:GLU129 4.7 0.9 1.0
CD2 D:TYR102 4.7 0.1 1.0
CG D:LYS98 4.9 0.4 1.0
CG2 D:THR126 4.9 98.2 1.0

Reference:

M.Tukalo, A.Yaremchuk, R.Fukunaga, S.Yokoyama, S.Cusack. The Crystal Structure of Leucyl-Trna Synthetase Complexed with Trna(Leu) in the Post-Transfer- Editing Conformation. Nat.Struct.Mol.Biol. V. 12 923 2005.
ISSN: ISSN 1545-9993
PubMed: 16155583
DOI: 10.1038/NSMB986
Page generated: Sun Aug 11 02:20:24 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy