Sodium in PDB 8k1e: Crystal Structure of A Human Menrna

The structure of Crystal Structure of A Human Menrna, PDB code: 8k1e was solved by Y.He, J.Deng, X.Lin, L.Huang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	36.25 / 2.23
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	137.589, 29.193, 99.144, 90, 126.75, 90
R / Rfree (%)	23.7 / 26.6

The structure of Crystal Structure of A Human Menrna also contains other interesting chemical elements:

Potassium	(K)	5 atoms
Magnesium	(Mg)	4 atoms

The binding sites of Sodium atom in the Crystal Structure of A Human Menrna (pdb code 8k1e). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 7 binding sites of Sodium where determined in the Crystal Structure of A Human Menrna, PDB code: 8k1e:
Jump to Sodium binding site number: 1; 2; 3; 4; 5; 6; 7;

Sodium binding site 1 out of 7 in the Crystal Structure of A Human Menrna


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 A Human Menrna within 5.0Å range: probe atom residue distance (Å) B Occ A:Na106 b:38.2 occ:1.00 O2' A:G11 4.0 69.3 1.0 O2 A:C15 4.6 46.8 1.0 OP2 A:G14 4.9 40.1 1.0

Sodium binding site 2 out of 7 in the Crystal Structure of A Human Menrna


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 A Human Menrna within 5.0Å range: probe atom residue distance (Å) B Occ A:Na107 b:26.3 occ:1.00 O6 A:G45 2.8 33.3 1.0 N7 A:G45 3.0 32.7 1.0 C6 A:G45 3.5 31.3 1.0 C5 A:G45 3.6 31.4 1.0 C8 A:G45 4.2 30.1 1.0 N4 A:C34 4.3 36.0 1.0 O A:HOH231 4.3 40.3 1.0 N6 A:A16 4.4 43.6 1.0 N4 A:C17 4.5 38.1 1.0 N1 A:G45 4.8 30.4 1.0 C4 A:G45 4.9 32.2 1.0

Sodium binding site 3 out of 7 in the Crystal Structure of A Human Menrna


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 A Human Menrna within 5.0Å range: probe atom residue distance (Å) B Occ A:Na108 b:97.7 occ:1.00 O2' A:C29 3.6 63.0 1.0 O3' A:C29 4.2 55.7 1.0 C4' A:C29 4.5 62.2 1.0 C3' A:C29 4.7 59.2 1.0 C2' A:C29 4.7 64.2 1.0

Sodium binding site 4 out of 7 in the Crystal Structure of A Human Menrna


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 4 of Crystal Structure of A Human Menrna within 5.0Å range: probe atom residue distance (Å) B Occ A:Na109 b:60.9 occ:1.00 O3' A:G11 2.3 62.0 1.0 C3' A:G11 3.0 63.5 1.0 O A:HOH227 3.4 52.7 1.0 C2' A:G11 3.8 56.1 1.0 C4' A:G11 4.4 59.4 1.0 O2' A:G11 4.4 69.3 1.0 C5' A:G11 4.8 49.6 1.0 O5' A:G11 5.0 46.5 1.0

Sodium binding site 5 out of 7 in the Crystal Structure of A Human Menrna


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 5 of Crystal Structure of A Human Menrna within 5.0Å range: probe atom residue distance (Å) B Occ A:Na110 b:56.7 occ:1.00 O3' A:U58 2.4 41.4 1.0 O A:HOH210 2.4 49.9 1.0 C3' A:U58 3.2 39.2 1.0 C5' A:U58 3.5 39.6 1.0 C4' A:U58 3.7 36.7 1.0 O5' A:U58 3.8 45.0 1.0 OP1 A:U58 4.4 56.4 1.0 C2' A:U58 4.6 37.2 1.0 P A:U58 4.7 42.4 1.0

Sodium binding site 6 out of 7 in the Crystal Structure of A Human Menrna


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 6 of Crystal Structure of A Human Menrna within 5.0Å range: probe atom residue distance (Å) B Occ B:Na101 b:48.8 occ:1.00 O6 B:G45 3.0 76.2 1.0 N7 B:G45 3.3 56.6 1.0 C6 B:G45 3.7 73.5 1.0 C5 B:G45 3.8 71.9 1.0 N4 B:C34 3.8 95.6 1.0 N4 B:C17 4.3 81.5 1.0 C8 B:G45 4.5 49.7 1.0 N6 B:A16 4.6 52.8 1.0 O6 B:G18 4.6 90.3 1.0 N7 B:A16 4.7 57.4 1.0

Sodium binding site 7 out of 7 in the Crystal Structure of A Human Menrna


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 7 of Crystal Structure of A Human Menrna within 5.0Å range: probe atom residue distance (Å) B Occ B:Na102 b:41.4 occ:1.00 O6 B:G14 3.4 55.7 1.0 N7 B:G14 3.6 51.8 1.0 O2' B:G13 4.1 53.6 1.0 C6 B:G14 4.2 48.2 1.0 C5 B:G14 4.3 52.8 1.0 O6 B:G43 4.8 52.6 1.0 C8 B:G14 4.8 55.7 1.0 N1 B:G43 4.8 51.8 1.0

Y.He, J.Deng, X.Lin, L.Huang. Crystal Structure of Mascrna and Menrna To Be Published.