Atomistry » Zinc » PDB 1ww1-1x6m » 1ww1
Atomistry »
  Zinc »
    PDB 1ww1-1x6m »
      1ww1 »

Zinc in PDB 1ww1: Crystal Structure of Trnase Z From Thermotoga Maritima

Enzymatic activity of Crystal Structure of Trnase Z From Thermotoga Maritima

All present enzymatic activity of Crystal Structure of Trnase Z From Thermotoga Maritima:
3.1.26.11;

Protein crystallography data

The structure of Crystal Structure of Trnase Z From Thermotoga Maritima, PDB code: 1ww1 was solved by R.Ishii, S.Yokoyama, Riken Structural Genomics/Proteomics Initiative(Rsgi), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 47.80 / 2.60
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 111.902, 73.642, 91.994, 90.00, 90.00, 90.00
R / Rfree (%) 22.5 / 27.9

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Trnase Z From Thermotoga Maritima (pdb code 1ww1). 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 Trnase Z From Thermotoga Maritima, PDB code: 1ww1:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 1ww1

Go back to Zinc Binding Sites List in 1ww1
Zinc binding site 1 out of 2 in the Crystal Structure of Trnase Z From Thermotoga Maritima


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 Trnase Z From Thermotoga Maritima within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn301

b:0.3
occ:1.00
NE2 A:HIS244 3.0 54.4 1.0
O A:ALA9 3.1 74.7 1.0
OD1 A:ASP190 3.3 71.0 1.0
OD2 A:ASP52 3.5 50.3 1.0
CE1 A:HIS244 3.8 60.9 1.0
OD2 A:ASP190 4.0 75.9 1.0
CD2 A:HIS244 4.0 52.5 1.0
CG A:ASP190 4.1 69.6 1.0
NE2 A:HIS53 4.1 60.3 1.0
CD2 A:LEU10 4.1 43.9 1.0
C A:ALA9 4.3 60.7 1.0
CG A:ASP52 4.4 47.3 1.0
CE1 A:HIS222 4.5 88.0 1.0
OD1 A:ASP52 4.5 44.6 1.0
CA A:LEU10 4.6 41.8 1.0
O A:HOH310 4.7 51.9 1.0
CD2 A:HIS53 4.7 58.3 1.0
NE2 A:HIS222 4.8 86.3 1.0
ND1 A:HIS244 4.9 59.3 1.0
N A:LEU10 5.0 43.8 1.0

Zinc binding site 2 out of 2 in 1ww1

Go back to Zinc Binding Sites List in 1ww1
Zinc binding site 2 out of 2 in the Crystal Structure of Trnase Z From Thermotoga Maritima


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 Trnase Z From Thermotoga Maritima within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn302

b:0.3
occ:1.00
OD1 B:ASP190 2.7 92.6 1.0
OD2 B:ASP52 3.2 50.2 1.0
NE2 B:HIS244 3.3 73.5 1.0
CG B:ASP190 3.6 99.2 1.0
NE2 B:HIS53 3.8 72.1 1.0
OD2 B:ASP190 3.8 97.3 1.0
CE1 B:HIS244 4.0 75.3 1.0
CG B:ASP52 4.1 56.2 1.0
OD1 B:ASP52 4.1 59.7 1.0
CD2 B:HIS244 4.2 68.7 1.0
N B:LEU10 4.4 42.2 1.0
CD2 B:HIS53 4.4 72.7 1.0
ND1 B:HIS50 4.5 89.6 1.0
CD2 B:LEU10 4.6 49.8 1.0
CA B:LEU10 4.7 46.5 1.0
CE1 B:HIS53 4.9 71.5 1.0

Reference:

R.Ishii, A.Minagawa, H.Takaku, M.Takagi, M.Nashimoto, S.Yokoyama. Crystal Structure of the Trna 3' Processing Endoribonuclease Trnase Z From Thermotoga Maritima J.Biol.Chem. V. 280 14138 2005.
ISSN: ISSN 0021-9258
PubMed: 15701599
DOI: 10.1074/JBC.M500355200
Page generated: Wed Dec 16 03:10:40 2020

Last articles

Zn in 7VD8
Zn in 7V1R
Zn in 7V1Q
Zn in 7VPF
Zn in 7T85
Zn in 7T5F
Zn in 7NF9
Zn in 7M4M
Zn in 7M4O
Zn in 7M4N
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy