Atomistry » Zinc » PDB 3egd-3erz » 3epl
Atomistry »
  Zinc »
    PDB 3egd-3erz »
      3epl »

Zinc in PDB 3epl: Crystallographic Snapshots of Eukaryotic Dimethylallyltransferase Acting on Trna: Insight Into Trna Recognition and Reaction Mechanism

Enzymatic activity of Crystallographic Snapshots of Eukaryotic Dimethylallyltransferase Acting on Trna: Insight Into Trna Recognition and Reaction Mechanism

All present enzymatic activity of Crystallographic Snapshots of Eukaryotic Dimethylallyltransferase Acting on Trna: Insight Into Trna Recognition and Reaction Mechanism:
2.5.1.8;

Protein crystallography data

The structure of Crystallographic Snapshots of Eukaryotic Dimethylallyltransferase Acting on Trna: Insight Into Trna Recognition and Reaction Mechanism, PDB code: 3epl was solved by R.H.Huang, C.Zhou, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 3.60
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 164.074, 209.850, 127.318, 90.00, 90.00, 90.00
R / Rfree (%) 20.2 / 26.6

Other elements in 3epl:

The structure of Crystallographic Snapshots of Eukaryotic Dimethylallyltransferase Acting on Trna: Insight Into Trna Recognition and Reaction Mechanism also contains other interesting chemical elements:

Magnesium (Mg) 4 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystallographic Snapshots of Eukaryotic Dimethylallyltransferase Acting on Trna: Insight Into Trna Recognition and Reaction Mechanism (pdb code 3epl). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Crystallographic Snapshots of Eukaryotic Dimethylallyltransferase Acting on Trna: Insight Into Trna Recognition and Reaction Mechanism, PDB code: 3epl:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 3epl

Go back to Zinc Binding Sites List in 3epl
Zinc binding site 1 out of 2 in the Crystallographic Snapshots of Eukaryotic Dimethylallyltransferase Acting on Trna: Insight Into Trna Recognition and Reaction Mechanism


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystallographic Snapshots of Eukaryotic Dimethylallyltransferase Acting on Trna: Insight Into Trna Recognition and Reaction Mechanism within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1

b:96.1
occ:1.00
 ND1 A:HIS403 1.8 97.5 1.0
SG A:CYS378 2.0 0.6 1.0
SG A:CYS375 2.1 0.9 1.0
NE2 A:HIS397 2.4 86.3 1.0
CE1 A:HIS403 2.6 96.6 1.0
CE1 A:HIS397 2.9 86.9 1.0
CG A:HIS403 3.0 97.8 1.0
CB A:CYS378 3.1 0.7 1.0
CB A:CYS375 3.4 0.1 1.0
CD2 A:HIS397 3.4 85.7 1.0
CB A:HIS403 3.6 0.5 1.0
NE2 A:HIS403 3.7 96.8 1.0
CA A:HIS403 3.9 0.0 1.0
CD2 A:HIS403 3.9 96.8 1.0
ND1 A:HIS397 4.0 86.2 1.0
N A:CYS378 4.1 0.0 1.0
CA A:CYS378 4.2 0.2 1.0
CG A:HIS397 4.3 86.3 1.0
C A:VAL377 4.4 0.2 1.0
CA A:CYS375 4.7 0.1 1.0
O A:VAL377 4.8 0.8 1.0
CB A:VAL377 4.8 0.9 1.0
N A:HIS403 4.8 0.9 1.0
N A:VAL377 5.0 0.4 1.0
CA A:VAL377 5.0 0.1 1.0
C A:HIS403 5.0 0.1 1.0

Zinc binding site 2 out of 2 in 3epl

Go back to Zinc Binding Sites List in 3epl
Zinc binding site 2 out of 2 in the Crystallographic Snapshots of Eukaryotic Dimethylallyltransferase Acting on Trna: Insight Into Trna Recognition and Reaction Mechanism


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystallographic Snapshots of Eukaryotic Dimethylallyltransferase Acting on Trna: Insight Into Trna Recognition and Reaction Mechanism within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn1

b:98.3
occ:1.00
 ND1 B:HIS403 2.0 99.3 1.0
NE2 B:HIS397 2.1 91.1 1.0
SG B:CYS378 2.1 0.3 1.0
CE1 B:HIS397 2.5 92.8 1.0
SG B:CYS375 2.6 96.3 1.0
CE1 B:HIS403 2.9 0.3 1.0
CG B:HIS403 2.9 98.5 1.0
CB B:CYS378 3.0 0.7 1.0
CD2 B:HIS397 3.2 90.3 1.0
CB B:HIS403 3.3 96.7 1.0
ND1 B:HIS397 3.6 91.7 1.0
CB B:CYS375 3.7 99.6 1.0
CA B:HIS403 3.7 97.8 1.0
CG B:HIS397 4.0 89.7 1.0
NE2 B:HIS403 4.0 0.4 1.0
CD2 B:HIS403 4.0 99.6 1.0
CA B:CYS378 4.3 0.1 1.0
N B:CYS378 4.4 0.0 1.0
N B:HIS403 4.4 99.4 1.0
C B:VAL377 4.7 0.6 1.0
CG2 B:VAL386 4.8 91.3 1.0
C B:HIS403 4.9 97.5 1.0
O B:HIS397 4.9 88.5 1.0
O B:VAL377 5.0 0.9 1.0

Reference:

C.Zhou, R.H.Huang. Crystallographic Snapshots of Eukaryotic Dimethylallyltransferase Acting on Trna: Insight Into Trna Recognition and Reaction Mechanism. Proc.Natl.Acad.Sci.Usa V. 105 16142 2008.
ISSN: ISSN 0027-8424
PubMed: 18852462
DOI: 10.1073/PNAS.0805680105
Page generated: Wed Aug 20 08:58:33 2025

Last articles

Zn in 9UUO
Zn in 9UUS
Zn in 9W4R
Zn in 9VKW
Zn in 9W4S
Zn in 9VH1
Zn in 9RMX
Zn in 9RMU
Zn in 9QWN
Zn in 9U9Y
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy