Atomistry » Zinc » PDB 1my0-1ndv » 1my3
Atomistry »
  Zinc »
    PDB 1my0-1ndv »
      1my3 »

Zinc in PDB 1my3: Crystal Structure of Glutamate Receptor Ligand-Binding Core in Complex with Bromo-Willardiine in the Zn Crystal Form

Protein crystallography data

The structure of Crystal Structure of Glutamate Receptor Ligand-Binding Core in Complex with Bromo-Willardiine in the Zn Crystal Form, PDB code: 1my3 was solved by R.Jin, E.Gouaux, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.29 / 1.75
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 114.061, 163.406, 47.848, 90.00, 90.00, 90.00
R / Rfree (%) 21.1 / 25.5

Other elements in 1my3:

The structure of Crystal Structure of Glutamate Receptor Ligand-Binding Core in Complex with Bromo-Willardiine in the Zn Crystal Form also contains other interesting chemical elements:

Bromine (Br) 3 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Glutamate Receptor Ligand-Binding Core in Complex with Bromo-Willardiine in the Zn Crystal Form (pdb code 1my3). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 5 binding sites of Zinc where determined in the Crystal Structure of Glutamate Receptor Ligand-Binding Core in Complex with Bromo-Willardiine in the Zn Crystal Form, PDB code: 1my3:
Jump to Zinc binding site number: 1; 2; 3; 4; 5;

Zinc binding site 1 out of 5 in 1my3

Go back to Zinc Binding Sites List in 1my3
Zinc binding site 1 out of 5 in the Crystal Structure of Glutamate Receptor Ligand-Binding Core in Complex with Bromo-Willardiine in the Zn Crystal Form


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 Glutamate Receptor Ligand-Binding Core in Complex with Bromo-Willardiine in the Zn Crystal Form within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn701

b:20.6
occ:1.00
OE2 B:GLU166 1.9 20.8 1.0
OE1 A:GLU42 1.9 17.2 1.0
O B:HOH912 2.1 16.0 1.0
NE2 A:HIS46 2.1 21.8 1.0
CD B:GLU166 2.6 20.4 1.0
OE1 B:GLU166 2.8 20.1 1.0
CD A:GLU42 3.0 18.2 1.0
CE1 A:HIS46 3.1 23.7 1.0
CD2 A:HIS46 3.1 19.7 1.0
OE2 A:GLU42 3.3 16.7 1.0
CD2 A:LEU241 4.0 16.9 1.0
CG B:GLU166 4.1 18.9 1.0
ND1 A:HIS46 4.2 21.7 1.0
CG A:HIS46 4.2 18.7 1.0
CG A:GLU42 4.3 15.0 1.0
N B:SER168 4.3 14.4 1.0
O B:ALA165 4.6 17.3 1.0
CB B:GLU166 4.7 19.4 1.0
CB A:GLU42 4.7 14.5 1.0
CA B:GLU166 4.9 19.2 1.0
CB B:SER168 4.9 14.4 1.0
CA B:SER168 4.9 15.7 1.0
C B:PRO167 5.0 16.2 1.0
CA B:PRO167 5.0 16.2 1.0

Zinc binding site 2 out of 5 in 1my3

Go back to Zinc Binding Sites List in 1my3
Zinc binding site 2 out of 5 in the Crystal Structure of Glutamate Receptor Ligand-Binding Core in Complex with Bromo-Willardiine in the Zn Crystal Form


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 Glutamate Receptor Ligand-Binding Core in Complex with Bromo-Willardiine in the Zn Crystal Form within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn702

b:29.9
occ:1.00
NE2 B:HIS23 2.1 19.8 1.0
OE2 B:GLU30 2.7 31.2 1.0
OE1 B:GLU30 2.8 28.8 1.0
CD2 B:HIS23 3.1 19.6 1.0
CD B:GLU30 3.1 29.2 1.0
CE1 B:HIS23 3.1 19.3 1.0
O B:HOH982 3.1 45.0 1.0
NZ B:LYS20 4.0 21.7 1.0
CD B:LYS20 4.1 18.8 1.0
ND1 B:HIS23 4.2 19.5 1.0
CG B:HIS23 4.2 20.5 1.0
O B:GLU30 4.3 21.8 1.0
CG B:GLU30 4.6 29.0 1.0
CE B:LYS20 4.7 20.6 1.0
CD1 B:LEU26 4.8 32.0 1.0

Zinc binding site 3 out of 5 in 1my3

Go back to Zinc Binding Sites List in 1my3
Zinc binding site 3 out of 5 in the Crystal Structure of Glutamate Receptor Ligand-Binding Core in Complex with Bromo-Willardiine in the Zn Crystal Form


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 Glutamate Receptor Ligand-Binding Core in Complex with Bromo-Willardiine in the Zn Crystal Form within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn704

b:20.1
occ:1.00
OE1 B:GLU42 2.0 14.6 1.0
NE2 B:HIS46 2.0 15.4 1.0
O B:HOH869 2.1 22.7 1.0
CD B:GLU42 2.9 16.8 1.0
CD2 B:HIS46 2.9 17.5 1.0
CE1 B:HIS46 3.1 14.5 1.0
OE2 B:GLU42 3.2 16.9 1.0
CD2 B:LEU241 3.6 11.2 1.0
OE1 B:GLN244 3.9 29.6 1.0
CG B:HIS46 4.1 14.6 1.0
ND1 B:HIS46 4.1 18.4 1.0
CG B:GLU42 4.3 12.9 1.0
CB B:GLU42 4.7 12.2 1.0
CD B:GLN244 4.8 29.0 1.0
CD1 B:LEU246 4.8 23.7 1.0
NE2 B:GLN244 4.8 32.0 1.0
O B:GLU42 5.0 13.0 1.0

Zinc binding site 4 out of 5 in 1my3

Go back to Zinc Binding Sites List in 1my3
Zinc binding site 4 out of 5 in the Crystal Structure of Glutamate Receptor Ligand-Binding Core in Complex with Bromo-Willardiine in the Zn Crystal Form


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 Glutamate Receptor Ligand-Binding Core in Complex with Bromo-Willardiine in the Zn Crystal Form within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn703

b:29.7
occ:1.00
O C:HOH913 2.3 32.8 1.0
OD2 C:ASP65 2.3 28.7 1.0
OD1 C:ASP65 2.8 32.1 1.0
CG C:ASP65 2.9 29.3 1.0
OD2 C:ASP67 3.9 38.0 1.0
CB C:ASP65 4.4 27.8 1.0
CB C:ASP67 4.5 34.2 1.0
CG C:ASP67 4.7 35.9 1.0

Zinc binding site 5 out of 5 in 1my3

Go back to Zinc Binding Sites List in 1my3
Zinc binding site 5 out of 5 in the Crystal Structure of Glutamate Receptor Ligand-Binding Core in Complex with Bromo-Willardiine in the Zn Crystal Form


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Crystal Structure of Glutamate Receptor Ligand-Binding Core in Complex with Bromo-Willardiine in the Zn Crystal Form within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn705

b:55.2
occ:1.00
OE1 C:GLU42 2.5 33.6 1.0
NE2 C:HIS46 2.5 39.4 1.0
CD2 C:HIS46 3.1 35.5 1.0
CD C:GLU42 3.6 32.6 1.0
CE1 C:HIS46 3.7 38.0 1.0
OE1 C:GLN244 4.0 40.7 1.0
CD2 C:LEU241 4.0 17.2 1.0
OE2 C:GLU42 4.1 33.1 1.0
CG C:HIS46 4.4 35.1 1.0
NE2 C:GLN244 4.5 39.0 1.0
ND1 C:HIS46 4.7 37.2 1.0
CD C:GLN244 4.7 39.2 1.0
CD C:LYS45 4.8 37.6 1.0
O C:HOH948 4.8 57.9 1.0
CG C:GLU42 4.8 29.8 1.0
CB C:GLU42 4.9 27.8 1.0
O C:GLU42 4.9 22.7 1.0

Reference:

R.Jin, E.Gouaux. Probing the Function, Conformational Plasticity, and Dimer-Dimer Contacts of the GLUR2 Ligand-Binding Core: Studies of 5-Substituted Willardiines and GLUR2 S1S2 in the Crystal Biochemistry V. 42 5201 2003.
ISSN: ISSN 0006-2960
PubMed: 12731861
DOI: 10.1021/BI020632T
Page generated: Wed Dec 16 02:57:35 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy