Zinc in PDB 6fmn: Trna Guanine Transglycosylase (Tgt) in Co-Crystallized Complex with 6- Amino-2-((((2R,3S,4R,5R)-3,4-Dihydroxy-5-Methoxytetrahydrofuran-2- Yl)Methyl)Amino)-1,7-Dihydro-8H-Imidazo[4,5-G]Quinazolin-8-One

Enzymatic activity of Trna Guanine Transglycosylase (Tgt) in Co-Crystallized Complex with 6- Amino-2-((((2R,3S,4R,5R)-3,4-Dihydroxy-5-Methoxytetrahydrofuran-2- Yl)Methyl)Amino)-1,7-Dihydro-8H-Imidazo[4,5-G]Quinazolin-8-One

All present enzymatic activity of Trna Guanine Transglycosylase (Tgt) in Co-Crystallized Complex with 6- Amino-2-((((2R,3S,4R,5R)-3,4-Dihydroxy-5-Methoxytetrahydrofuran-2- Yl)Methyl)Amino)-1,7-Dihydro-8H-Imidazo[4,5-G]Quinazolin-8-One:
2.4.2.29;

Protein crystallography data

The structure of Trna Guanine Transglycosylase (Tgt) in Co-Crystallized Complex with 6- Amino-2-((((2R,3S,4R,5R)-3,4-Dihydroxy-5-Methoxytetrahydrofuran-2- Yl)Methyl)Amino)-1,7-Dihydro-8H-Imidazo[4,5-G]Quinazolin-8-One, PDB code: 6fmn was solved by A.Nguyen, A.Heine, G.Klebe, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 44.77 / 1.36
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 89.672, 64.267, 70.690, 90.00, 93.15, 90.00
R / Rfree (%) 12.2 / 15.5

Other elements in 6fmn:

The structure of Trna Guanine Transglycosylase (Tgt) in Co-Crystallized Complex with 6- Amino-2-((((2R,3S,4R,5R)-3,4-Dihydroxy-5-Methoxytetrahydrofuran-2- Yl)Methyl)Amino)-1,7-Dihydro-8H-Imidazo[4,5-G]Quinazolin-8-One also contains other interesting chemical elements:

Chlorine (Cl) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the Trna Guanine Transglycosylase (Tgt) in Co-Crystallized Complex with 6- Amino-2-((((2R,3S,4R,5R)-3,4-Dihydroxy-5-Methoxytetrahydrofuran-2- Yl)Methyl)Amino)-1,7-Dihydro-8H-Imidazo[4,5-G]Quinazolin-8-One (pdb code 6fmn). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the Trna Guanine Transglycosylase (Tgt) in Co-Crystallized Complex with 6- Amino-2-((((2R,3S,4R,5R)-3,4-Dihydroxy-5-Methoxytetrahydrofuran-2- Yl)Methyl)Amino)-1,7-Dihydro-8H-Imidazo[4,5-G]Quinazolin-8-One, PDB code: 6fmn:

Zinc binding site 1 out of 1 in 6fmn

Go back to Zinc Binding Sites List in 6fmn
Zinc binding site 1 out of 1 in the Trna Guanine Transglycosylase (Tgt) in Co-Crystallized Complex with 6- Amino-2-((((2R,3S,4R,5R)-3,4-Dihydroxy-5-Methoxytetrahydrofuran-2- Yl)Methyl)Amino)-1,7-Dihydro-8H-Imidazo[4,5-G]Quinazolin-8-One


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Trna Guanine Transglycosylase (Tgt) in Co-Crystallized Complex with 6- Amino-2-((((2R,3S,4R,5R)-3,4-Dihydroxy-5-Methoxytetrahydrofuran-2- Yl)Methyl)Amino)-1,7-Dihydro-8H-Imidazo[4,5-G]Quinazolin-8-One within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn405

b:10.0
occ:1.00
 ND1 A:HIS349 2.1 9.4 1.0
SG A:CYS323 2.3 9.9 1.0
SG A:CYS320 2.3 9.4 1.0
SG A:CYS318 2.3 11.5 1.0
CE1 A:HIS349 2.9 10.0 1.0
HB2 A:CYS323 3.0 11.1 1.0
HE1 A:HIS349 3.0 12.1 1.0
HB3 A:CYS318 3.1 15.0 1.0
HB3 A:CYS320 3.2 11.7 1.0
CG A:HIS349 3.2 8.6 1.0
CB A:CYS323 3.3 9.2 1.0
HB2 A:HIS349 3.3 9.6 1.0
H A:CYS323 3.3 11.8 1.0
CB A:CYS318 3.4 12.5 1.0
CB A:CYS320 3.4 9.7 1.0
H A:CYS320 3.5 13.2 1.0
HA A:HIS349 3.5 8.6 1.0
CB A:HIS349 3.7 8.0 1.0
HB2 A:CYS318 3.8 15.0 1.0
HB A:VAL322 3.9 11.9 1.0
N A:CYS323 3.9 9.8 1.0
HB3 A:CYS323 4.0 11.1 1.0
CA A:HIS349 4.1 7.1 1.0
NE2 A:HIS349 4.1 10.0 1.0
HB2 A:CYS320 4.1 11.7 1.0
N A:CYS320 4.1 11.0 1.0
HB2 A:LEU314 4.2 12.8 1.0
CA A:CYS323 4.2 10.2 1.0
CA A:CYS320 4.2 10.3 1.0
CD2 A:HIS349 4.3 9.0 1.0
HB3 A:ALA352 4.4 11.6 1.0
HD12 A:LEU314 4.5 12.8 1.0
HE22 A:GLN356 4.5 20.4 1.0
HB3 A:ASP315 4.5 16.1 1.0
O A:HIS349 4.6 8.2 1.0
HA A:CYS323 4.6 12.2 1.0
HB3 A:HIS349 4.6 9.6 1.0
H A:ASP315 4.6 13.9 1.0
CA A:CYS318 4.6 13.0 1.0
O A:CYS320 4.7 10.9 1.0
C A:CYS320 4.7 10.1 1.0
C A:CYS318 4.7 13.7 1.0
H A:VAL322 4.8 11.1 1.0
C A:HIS349 4.8 7.0 1.0
CB A:VAL322 4.8 9.9 1.0
HE2 A:HIS349 4.9 12.1 1.0
O A:CYS318 4.9 14.0 1.0
C A:VAL322 4.9 10.0 1.0

Reference:

L.D.Movsisyan, E.Schafer, A.Nguyen, F.R.Ehrmann, A.Schwab, T.Rossolini, D.Zimmerli, B.Wagner, H.Daff, A.Heine, G.Klebe, F.Diederich. Sugar Acetonides Are A Superior Motif For Addressing the Large, Solvent-Exposed Ribose-33 Pocket of Trna-Guanine Transglycosylase. Chemistry V. 24 9957 2018.
ISSN: ISSN 1521-3765
PubMed: 29939431
DOI: 10.1002/CHEM.201801756
Page generated: Wed Dec 16 11:48:45 2020

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