Sodium in PDB 6yls: MEOS4B - Directionality of Optical Properties of Fluorescent Proteins

Protein crystallography data

The structure of MEOS4B - Directionality of Optical Properties of Fluorescent Proteins, PDB code: 6yls was solved by J.Myskova, O.Rybakova, J.Brynda, J.Lazar, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 35.44 / 1.55
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 38.510, 70.510, 90.600, 90.00, 90.00, 90.00
R / Rfree (%) 18.6 / 21.4

Other elements in 6yls:

The structure of MEOS4B - Directionality of Optical Properties of Fluorescent Proteins also contains other interesting chemical elements:

Chlorine (Cl) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the MEOS4B - Directionality of Optical Properties of Fluorescent Proteins (pdb code 6yls). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the MEOS4B - Directionality of Optical Properties of Fluorescent Proteins, PDB code: 6yls:

Sodium binding site 1 out of 1 in 6yls

Go back to Sodium Binding Sites List in 6yls
Sodium binding site 1 out of 1 in the MEOS4B - Directionality of Optical Properties of Fluorescent Proteins


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of MEOS4B - Directionality of Optical Properties of Fluorescent Proteins within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na302

b:18.6
occ:1.00
O A:MET132 2.3 12.1 1.0
O A:PRO53 2.4 14.6 1.0
C A:MET132 3.4 11.1 1.0
C A:PRO53 3.5 13.8 1.0
CA A:PRO53 4.0 14.4 1.0
CB A:PRO53 4.0 14.8 1.0
CA A:MET132 4.1 11.2 1.0
CB A:MET132 4.3 13.7 1.0
O A:HOH523 4.3 20.6 1.0
N A:GLN133 4.5 10.9 1.0
CE A:LYS134 4.5 24.4 1.0
CE A:MET132 4.5 14.5 1.0
N A:PHE54 4.6 13.6 1.0
CA A:GLN133 4.7 11.4 1.0
CA A:PHE54 4.9 13.3 1.0

Reference:

J.Myskova, O.Rybakova, J.Brynda, P.Khoroshyy, A.Bondar, J.Lazar. Directionality of Light Absorption and Emission in Representative Fluorescent Proteins. Proc.Natl.Acad.Sci.Usa 2020.
ISSN: ESSN 1091-6490
PubMed: 33273123
DOI: 10.1073/PNAS.2017379117
Page generated: Thu Dec 17 13:14:13 2020

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