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Sodium in PDB 6gqc: Crystal Structure of the PSMALPHA3 Peptide Mutant G16A Forming Cross- Alpha Amyloid-Like Fibril

Protein crystallography data

The structure of Crystal Structure of the PSMALPHA3 Peptide Mutant G16A Forming Cross- Alpha Amyloid-Like Fibril, PDB code: 6gqc was solved by M.Landau, E.Tayeb-Fligelman, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 14.67 / 1.40
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 53.270, 13.300, 25.800, 90.00, 111.91, 90.00
R / Rfree (%) 15.1 / 19.3

Other elements in 6gqc:

The structure of Crystal Structure of the PSMALPHA3 Peptide Mutant G16A Forming Cross- Alpha Amyloid-Like Fibril also contains other interesting chemical elements:

Chlorine (Cl) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of the PSMALPHA3 Peptide Mutant G16A Forming Cross- Alpha Amyloid-Like Fibril (pdb code 6gqc). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Crystal Structure of the PSMALPHA3 Peptide Mutant G16A Forming Cross- Alpha Amyloid-Like Fibril, PDB code: 6gqc:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in 6gqc

Go back to Sodium Binding Sites List in 6gqc
Sodium binding site 1 out of 2 in the Crystal Structure of the PSMALPHA3 Peptide Mutant G16A Forming Cross- Alpha Amyloid-Like Fibril


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 the PSMALPHA3 Peptide Mutant G16A Forming Cross- Alpha Amyloid-Like Fibril within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na101

b:43.6
occ:1.00
OD1 A:ASP13 2.9 30.0 1.0
CG A:ASP13 3.4 26.8 1.0
NZ A:LYS9 3.4 28.1 1.0
OD2 A:ASP13 3.4 31.1 1.0
CB A:ASP13 4.6 18.6 1.0
CE A:LYS9 4.8 26.5 1.0

Sodium binding site 2 out of 2 in 6gqc

Go back to Sodium Binding Sites List in 6gqc
Sodium binding site 2 out of 2 in the Crystal Structure of the PSMALPHA3 Peptide Mutant G16A Forming Cross- Alpha Amyloid-Like Fibril


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 the PSMALPHA3 Peptide Mutant G16A Forming Cross- Alpha Amyloid-Like Fibril within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na102

b:43.1
occ:1.00
CL A:CL103 2.4 53.7 1.0
O A:HOH202 2.7 23.4 1.0
CD1 A:PHE10 3.7 15.1 1.0
CE1 A:PHE10 4.3 15.7 1.0
OD2 A:ASP13 4.4 31.1 1.0
CA A:PHE10 4.6 11.2 1.0
CG A:PHE10 4.7 13.3 1.0
CB A:ASP13 4.7 18.6 1.0
O A:HOH201 4.7 25.9 1.0
CB A:PHE10 4.8 12.1 1.0

Reference:

E.Tayeb-Fligelman, M.Landau. Structure-Fibrillation-Function Relationship of the Cytotoxic PSMALPHA3 To Be Published.
Page generated: Tue Oct 8 09:06:32 2024

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