Atomistry » Sodium » PDB 3h0n-3hwd » 3h84
Atomistry »
  Sodium »
    PDB 3h0n-3hwd »
      3h84 »

Sodium in PDB 3h84: Crystal Structure of GET3

Enzymatic activity of Crystal Structure of GET3

All present enzymatic activity of Crystal Structure of GET3:
3.6.3.16;

Protein crystallography data

The structure of Crystal Structure of GET3, PDB code: 3h84 was solved by J.Hu, J.Li, X.Qian, B.Sha, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 2.30
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 219.400, 113.743, 48.370, 90.00, 90.00, 90.00
R / Rfree (%) 22.2 / 24.7

Other elements in 3h84:

The structure of Crystal Structure of GET3 also contains other interesting chemical elements:

Magnesium (Mg) 2 atoms
Zinc (Zn) 1 atom
Chlorine (Cl) 2 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of GET3 (pdb code 3h84). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 3 binding sites of Sodium where determined in the Crystal Structure of GET3, PDB code: 3h84:
Jump to Sodium binding site number: 1; 2; 3;

Sodium binding site 1 out of 3 in 3h84

Go back to Sodium Binding Sites List in 3h84
Sodium binding site 1 out of 3 in the Crystal Structure of GET3


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of GET3 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na357

b:58.7
occ:1.00
NH2 A:ARG104 4.1 42.8 1.0
N A:GLY112 4.3 71.6 1.0
CZ A:ARG104 4.7 43.2 1.0
CA A:GLY112 4.7 72.5 1.0
C A:ASP111 4.9 70.8 1.0

Sodium binding site 2 out of 3 in 3h84

Go back to Sodium Binding Sites List in 3h84
Sodium binding site 2 out of 3 in the Crystal Structure of GET3


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Crystal Structure of GET3 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na358

b:46.6
occ:1.00
O A:ASP166 3.1 46.2 1.0
O A:ILE54 3.5 43.9 1.0
CB A:THR56 3.7 47.1 1.0
C A:ASP166 3.8 46.1 1.0
N A:THR56 4.0 46.2 1.0
O A:HOH498 4.1 31.0 1.0
CG2 A:THR56 4.2 47.2 1.0
CB A:PHE165 4.2 43.3 1.0
C A:ILE54 4.2 44.0 1.0
N A:ASP166 4.2 44.6 1.0
CD1 A:PHE165 4.2 42.4 1.0
C A:SER55 4.2 45.6 1.0
CA A:THR167 4.3 47.7 1.0
CA A:SER55 4.3 44.9 1.0
OG1 A:THR56 4.3 48.5 1.0
N A:THR167 4.4 47.0 1.0
CA A:PHE165 4.4 43.6 1.0
CG2 A:ILE54 4.4 43.4 1.0
C A:PHE165 4.4 44.0 1.0
CA A:THR56 4.5 47.1 1.0
N A:SER55 4.6 44.4 1.0
O A:HOH486 4.6 33.0 1.0
CA A:ASP166 4.7 45.5 1.0
CG A:PHE165 4.7 43.2 1.0
O A:SER55 4.9 45.4 1.0
C A:THR167 5.0 48.5 1.0
N A:ALA168 5.0 49.5 1.0

Sodium binding site 3 out of 3 in 3h84

Go back to Sodium Binding Sites List in 3h84
Sodium binding site 3 out of 3 in the Crystal Structure of GET3


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Crystal Structure of GET3 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na359

b:53.8
occ:1.00
OE2 A:GLU258 3.1 47.8 1.0
N A:LEU174 3.3 50.0 1.0
CD A:GLU258 3.7 46.1 1.0
O A:HOH436 3.7 30.9 1.0
N A:THR173 3.7 51.3 1.0
CB A:LEU174 3.7 49.6 1.0
OE1 A:GLU258 3.8 46.7 1.0
C A:HIS172 3.9 51.6 1.0
CE2 A:TYR262 4.0 42.7 1.0
CA A:LEU174 4.1 49.6 1.0
CA A:HIS172 4.1 52.1 1.0
CG A:LEU174 4.2 49.6 1.0
CD1 A:LEU174 4.3 49.2 1.0
C A:THR173 4.3 50.5 1.0
CA A:THR173 4.3 51.2 1.0
O A:HIS172 4.4 51.3 1.0
CB A:THR173 4.5 51.2 1.0
OH A:TYR262 4.6 43.6 1.0
CB A:HIS172 4.6 52.2 1.0
CD2 A:LEU259 4.6 40.6 1.0
C A:LEU174 4.7 49.3 1.0
N A:ARG175 4.8 49.1 1.0
CZ A:TYR262 4.8 42.5 1.0
CD2 A:LEU255 4.8 46.9 1.0
CG A:GLU258 4.8 44.6 1.0
CD2 A:TYR262 4.9 43.5 1.0

Reference:

J.Hu, J.Li, X.Qian, V.Denic, B.Sha. The Crystal Structures of Yeast GET3 Suggest A Mechanism For Tail-Anchored Protein Membrane Insertion. Plos One V. 4 E8061 2009.
ISSN: ESSN 1932-6203
PubMed: 19956640
DOI: 10.1371/JOURNAL.PONE.0008061
Page generated: Mon Oct 7 10:22:22 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy