Zinc in PDB 5fth: Crystal Structure of the GLUA2 K738M-T744K Lbd in Complex with Glutamate (Zinc Form)

The structure of Crystal Structure of the GLUA2 K738M-T744K Lbd in Complex with Glutamate (Zinc Form), PDB code: 5fth was solved by N.Nayeem, T.Green, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	92.208 / 2.90
Space group	P 2 21 21
Cell size a, b, c (Å), α, β, γ (°)	46.375, 110.523, 167.245, 90.00, 90.00, 90.00
R / Rfree (%)	24.29 / 28.29

The binding sites of Zinc atom in the Crystal Structure of the GLUA2 K738M-T744K Lbd in Complex with Glutamate (Zinc Form) (pdb code 5fth). 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 the GLUA2 K738M-T744K Lbd in Complex with Glutamate (Zinc Form), PDB code: 5fth:
Jump to Zinc binding site number: 1; 2; 3; 4; 5;

Zinc binding site 1 out of 5 in the Crystal Structure of the GLUA2 K738M-T744K Lbd in Complex with Glutamate (Zinc 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 the GLUA2 K738M-T744K Lbd in Complex with Glutamate (Zinc Form) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn901 b:0.1 occ:1.00 NE2 A:HIS412 2.1 0.3 1.0 CD2 A:HIS412 2.5 0.3 1.0 CE1 A:HIS412 3.2 0.1 1.0 CG A:HIS412 3.7 0.0 1.0 CB A:MET408 3.7 0.7 1.0 ND1 A:HIS412 3.9 0.6 1.0 CG A:MET408 4.1 0.5 1.0 OE2 A:GLU413 4.3 0.4 1.0 O A:LYS409 4.6 0.7 1.0 SD A:MET408 4.9 0.5 1.0 CB A:HIS412 4.9 0.6 1.0

Zinc binding site 2 out of 5 in the Crystal Structure of the GLUA2 K738M-T744K Lbd in Complex with Glutamate (Zinc 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 the GLUA2 K738M-T744K Lbd in Complex with Glutamate (Zinc Form) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn902 b:93.7 occ:1.00 OE1 A:GLU431 2.0 61.9 1.0 OE1 C:GLU678 2.0 76.9 1.0 NE2 A:HIS435 2.1 74.8 1.0 CD A:GLU431 2.6 71.3 1.0 OE2 A:GLU431 2.7 89.1 1.0 CD C:GLU678 2.9 83.3 1.0 CE1 A:HIS435 2.9 75.5 1.0 CD2 A:HIS435 3.2 63.7 1.0 OE2 C:GLU678 3.3 86.0 1.0 CG C:GLU678 4.0 86.9 1.0 ND1 A:HIS435 4.1 68.2 1.0 CG A:GLU431 4.1 62.4 1.0 N C:SER680 4.2 79.5 1.0 CB C:GLU678 4.2 86.5 1.0 CG A:HIS435 4.2 65.3 1.0 CA C:PRO679 4.2 83.7 1.0 C C:PRO679 4.5 86.7 1.0 CD2 A:LEU753 4.6 71.2 1.0 CA C:GLU678 4.6 79.5 1.0 CB A:GLU431 4.8 61.8 1.0 CA C:SER680 5.0 76.9 1.0

Zinc binding site 3 out of 5 in the Crystal Structure of the GLUA2 K738M-T744K Lbd in Complex with Glutamate (Zinc 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 the GLUA2 K738M-T744K Lbd in Complex with Glutamate (Zinc Form) within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn901 b:0.0 occ:1.00 NE2 B:HIS412 2.1 0.1 1.0 CE1 B:HIS412 2.9 0.4 1.0 CD2 B:HIS412 3.2 1.0 1.0 ND1 B:HIS412 4.1 1.0 1.0 CG B:GLU413 4.2 0.4 1.0 CG B:HIS412 4.3 0.0 1.0 OE2 B:GLU413 4.3 0.6 1.0 CD B:GLU413 4.7 0.5 1.0

Zinc binding site 4 out of 5 in the Crystal Structure of the GLUA2 K738M-T744K Lbd in Complex with Glutamate (Zinc 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 the GLUA2 K738M-T744K Lbd in Complex with Glutamate (Zinc Form) within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn902 b:0.2 occ:1.00 OE1 B:GLU431 2.0 0.8 1.0 NE2 B:HIS435 2.1 0.6 1.0 CE1 B:HIS435 2.9 0.7 1.0 CD B:GLU431 3.0 0.6 1.0 CD2 B:HIS435 3.1 0.5 1.0 OE2 B:GLU431 3.3 0.3 1.0 ND1 B:HIS435 4.1 0.5 1.0 CG B:HIS435 4.1 0.5 1.0 CG B:GLU431 4.3 0.4 1.0 CD2 B:LEU753 4.5 99.2 1.0 CB B:GLU431 4.8 0.0 1.0 CD B:LYS434 5.0 0.2 1.0

Zinc binding site 5 out of 5 in the Crystal Structure of the GLUA2 K738M-T744K Lbd in Complex with Glutamate (Zinc 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 the GLUA2 K738M-T744K Lbd in Complex with Glutamate (Zinc Form) within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn902 b:0.2 occ:1.00 OE1 C:GLU431 2.0 0.9 1.0 NE2 C:HIS435 2.1 0.1 1.0 CE1 C:HIS435 2.9 0.5 1.0 CD C:GLU431 3.0 0.7 1.0 CD2 C:HIS435 3.1 0.3 1.0 OE2 C:GLU431 3.3 0.5 1.0 ND1 C:HIS435 4.0 0.6 1.0 CG C:HIS435 4.1 0.3 1.0 CG C:GLU431 4.3 89.8 1.0 CB C:GLU431 4.7 85.8 1.0 CD2 C:LEU753 4.7 76.0 1.0 O C:GLU431 4.9 0.4 1.0 CA C:GLU431 5.0 92.5 1.0

G.B.Dawe, M.Musgaard, M.R.P.Aurousseau, N.Nayeem, T.Green, P.C.Biggin, D.Bowie. Distinct Structural Pathways Coordinate the Activation of Ampa Receptor-Auxiliary Subunit Complexes. Neuron V. 89 1264 2016.
ISSN: ISSN 0896-6273
PubMed: 26924438
DOI: 10.1016/J.NEURON.2016.01.038