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Zinc in PDB 2ash: Crystal Structure of Queuine Trna-Ribosyltransferase (Ec 2.4.2.29) (Trna-Guanine (TM1561) From Thermotoga Maritima at 1.90 A Resolution

Enzymatic activity of Crystal Structure of Queuine Trna-Ribosyltransferase (Ec 2.4.2.29) (Trna-Guanine (TM1561) From Thermotoga Maritima at 1.90 A Resolution

All present enzymatic activity of Crystal Structure of Queuine Trna-Ribosyltransferase (Ec 2.4.2.29) (Trna-Guanine (TM1561) From Thermotoga Maritima at 1.90 A Resolution:
2.4.2.29;

Protein crystallography data

The structure of Crystal Structure of Queuine Trna-Ribosyltransferase (Ec 2.4.2.29) (Trna-Guanine (TM1561) From Thermotoga Maritima at 1.90 A Resolution, PDB code: 2ash was solved by Joint Center For Structural Genomics (Jcsg), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 51.70 / 1.90
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 169.467, 99.422, 124.163, 90.00, 123.80, 90.00
R / Rfree (%) 19.3 / 22.9

Other elements in 2ash:

The structure of Crystal Structure of Queuine Trna-Ribosyltransferase (Ec 2.4.2.29) (Trna-Guanine (TM1561) From Thermotoga Maritima at 1.90 A Resolution also contains other interesting chemical elements:

Chlorine (Cl) 5 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Queuine Trna-Ribosyltransferase (Ec 2.4.2.29) (Trna-Guanine (TM1561) From Thermotoga Maritima at 1.90 A Resolution (pdb code 2ash). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Crystal Structure of Queuine Trna-Ribosyltransferase (Ec 2.4.2.29) (Trna-Guanine (TM1561) From Thermotoga Maritima at 1.90 A Resolution, PDB code: 2ash:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in 2ash

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Zinc binding site 1 out of 4 in the Crystal Structure of Queuine Trna-Ribosyltransferase (Ec 2.4.2.29) (Trna-Guanine (TM1561) From Thermotoga Maritima at 1.90 A Resolution


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 Queuine Trna-Ribosyltransferase (Ec 2.4.2.29) (Trna-Guanine (TM1561) From Thermotoga Maritima at 1.90 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn400

b:16.1
occ:1.00
 SG A:CYS304 2.1 27.6 1.0
ND1 A:HIS330 2.2 24.4 1.0
SG A:CYS301 2.3 24.7 1.0
SG A:CYS299 2.4 27.2 1.0
CE1 A:HIS330 3.0 27.2 1.0
CB A:CYS299 3.2 28.5 1.0
CB A:CYS304 3.3 26.4 1.0
CG A:HIS330 3.3 26.4 1.0
CB A:CYS301 3.4 25.6 1.0
CB A:HIS330 3.7 24.7 1.0
N A:CYS304 3.9 25.4 1.0
CA A:HIS330 4.1 24.0 1.0
N A:CYS301 4.1 26.0 1.0
NE2 A:HIS330 4.2 27.2 1.0
CA A:CYS301 4.2 25.6 1.0
CA A:CYS304 4.2 26.1 1.0
CD2 A:HIS330 4.3 27.0 1.0
CA A:CYS299 4.5 27.9 1.0
O A:HIS330 4.6 24.7 1.0
C A:CYS301 4.7 24.9 1.0
C A:CYS299 4.7 28.1 1.0
O A:CYS301 4.7 23.9 1.0
CB A:THR303 4.8 25.1 1.0
C A:HIS330 4.8 23.7 1.0
O A:CYS299 4.9 27.9 1.0
C A:THR303 5.0 24.3 1.0
O A:HOH496 5.0 25.1 1.0

Zinc binding site 2 out of 4 in 2ash

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Zinc binding site 2 out of 4 in the Crystal Structure of Queuine Trna-Ribosyltransferase (Ec 2.4.2.29) (Trna-Guanine (TM1561) From Thermotoga Maritima at 1.90 A Resolution


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 Queuine Trna-Ribosyltransferase (Ec 2.4.2.29) (Trna-Guanine (TM1561) From Thermotoga Maritima at 1.90 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn400

b:17.0
occ:1.00
 ND1 B:HIS330 2.1 24.3 1.0
SG B:CYS304 2.3 28.5 1.0
SG B:CYS301 2.3 27.8 1.0
SG B:CYS299 2.4 32.4 1.0
CE1 B:HIS330 2.8 26.2 1.0
CB B:CYS299 3.2 32.2 1.0
CG B:HIS330 3.2 24.9 1.0
CB B:CYS304 3.3 27.2 1.0
CB B:CYS301 3.4 26.4 1.0
CB B:HIS330 3.7 23.2 1.0
N B:CYS304 4.0 26.4 1.0
N B:CYS301 4.0 26.7 1.0
NE2 B:HIS330 4.0 25.5 1.0
CA B:HIS330 4.1 23.6 1.0
CA B:CYS301 4.2 26.6 1.0
CD2 B:HIS330 4.2 25.4 1.0
CA B:CYS304 4.2 27.3 1.0
CA B:CYS299 4.5 31.3 1.0
O B:HIS330 4.6 25.1 1.0
C B:CYS299 4.7 30.5 1.0
C B:CYS301 4.7 26.2 1.0
O B:CYS301 4.7 24.9 1.0
CB B:ASP296 4.7 30.3 1.0
CB B:THR303 4.7 22.4 1.0
C B:HIS330 4.8 24.2 1.0
O B:CYS299 4.8 30.4 1.0
O B:HOH449 4.9 22.3 1.0
C B:THR303 5.0 25.3 1.0
N B:GLY300 5.0 29.9 1.0

Zinc binding site 3 out of 4 in 2ash

Go back to Zinc Binding Sites List in 2ash
Zinc binding site 3 out of 4 in the Crystal Structure of Queuine Trna-Ribosyltransferase (Ec 2.4.2.29) (Trna-Guanine (TM1561) From Thermotoga Maritima at 1.90 A Resolution


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure of Queuine Trna-Ribosyltransferase (Ec 2.4.2.29) (Trna-Guanine (TM1561) From Thermotoga Maritima at 1.90 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn400

b:18.5
occ:1.00
 SG C:CYS304 2.1 27.1 1.0
ND1 C:HIS330 2.2 27.8 1.0
SG C:CYS301 2.4 26.7 1.0
SG C:CYS299 2.4 26.1 1.0
CE1 C:HIS330 3.0 25.6 1.0
CB C:CYS299 3.2 27.6 1.0
CB C:CYS304 3.3 26.3 1.0
CG C:HIS330 3.3 26.0 1.0
CB C:CYS301 3.3 23.9 1.0
CB C:HIS330 3.8 23.9 1.0
N C:CYS304 4.0 25.5 1.0
N C:CYS301 4.0 26.4 1.0
CA C:HIS330 4.1 24.5 1.0
CA C:CYS301 4.1 25.5 1.0
NE2 C:HIS330 4.2 27.9 1.0
CA C:CYS304 4.2 26.6 1.0
CD2 C:HIS330 4.3 28.7 1.0
CA C:CYS299 4.5 26.9 1.0
C C:CYS301 4.6 25.2 1.0
C C:CYS299 4.6 27.8 1.0
O C:CYS301 4.7 24.2 1.0
O C:HIS330 4.7 25.5 1.0
CB C:THR303 4.8 23.5 1.0
O C:HOH505 4.8 32.1 1.0
O C:CYS299 4.8 26.0 1.0
C C:HIS330 4.9 23.8 1.0
CB C:ASP296 4.9 29.1 1.0
C C:THR303 5.0 24.0 1.0

Zinc binding site 4 out of 4 in 2ash

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Zinc binding site 4 out of 4 in the Crystal Structure of Queuine Trna-Ribosyltransferase (Ec 2.4.2.29) (Trna-Guanine (TM1561) From Thermotoga Maritima at 1.90 A Resolution


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Crystal Structure of Queuine Trna-Ribosyltransferase (Ec 2.4.2.29) (Trna-Guanine (TM1561) From Thermotoga Maritima at 1.90 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn400

b:29.9
occ:1.00
 ND1 D:HIS330 1.8 11.7 1.0
SG D:CYS301 2.3 27.7 1.0
SG D:CYS299 2.5 30.2 1.0
SG D:CYS304 2.5 30.2 1.0
CE1 D:HIS330 2.7 27.8 1.0
CG D:HIS330 3.0 23.1 1.0
CB D:CYS301 3.1 27.0 1.0
CB D:CYS299 3.2 29.4 1.0
CB D:CYS304 3.2 28.0 1.0
CB D:HIS330 3.5 23.1 1.0
N D:CYS301 3.8 28.0 1.0
N D:CYS304 3.8 27.0 1.0
NE2 D:HIS330 3.8 19.4 1.0
CA D:CYS301 3.9 27.4 1.0
CD2 D:HIS330 4.0 18.0 1.0
CA D:HIS330 4.1 23.2 1.0
CA D:CYS304 4.2 27.9 1.0
C D:CYS301 4.4 27.5 1.0
CA D:CYS299 4.5 29.6 1.0
O D:CYS301 4.5 26.7 1.0
C D:CYS299 4.6 29.2 1.0
CB D:THR303 4.7 22.4 1.0
O D:HIS330 4.7 23.1 1.0
O D:CYS299 4.7 28.5 1.0
C D:THR303 4.9 25.4 1.0
C D:HIS330 4.9 23.4 1.0
N D:GLY300 4.9 28.7 1.0
C D:GLY300 5.0 27.8 1.0
CB D:ASN333 5.0 24.8 1.0

Reference:

Joint Center For Structural Genomics (Jcsg), Joint Center For Structural Genomics (Jcsg). N/A N/A.
Page generated: Wed Oct 16 21:48:24 2024

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