Sodium in PDB 8y5u: Human NAS1 Intermediate State 1

The binding sites of Sodium atom in the Human NAS1 Intermediate State 1 (pdb code 8y5u). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 3 binding sites of Sodium where determined in the Human NAS1 Intermediate State 1, PDB code: 8y5u:
Jump to Sodium binding site number: 1; 2; 3;

Sodium binding site 1 out of 3 in the Human NAS1 Intermediate State 1


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Human NAS1 Intermediate State 1 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na601 b:37.4 occ:1.00 OD1 A:ASN490 2.4 39.9 1.0 O A:ALA532 2.4 36.6 1.0 O A:ALA488 2.5 33.9 1.0 O A:THR485 2.5 37.7 1.0 OG1 A:THR485 2.7 37.7 1.0 N A:ASN490 3.1 39.9 1.0 CB A:ALA526 3.1 40.6 1.0 C A:SER489 3.3 37.9 1.0 CG A:ASN490 3.3 39.9 1.0 C A:ALA532 3.4 36.6 1.0 C A:ALA488 3.6 33.9 1.0 C A:THR485 3.6 37.7 1.0 CA A:SER489 3.6 37.9 1.0 CA A:ASN490 3.6 39.9 1.0 CB A:THR485 3.8 37.7 1.0 O A:SER489 3.9 37.9 1.0 CA A:THR485 4.0 37.7 1.0 N A:SER489 4.0 37.9 1.0 CB A:ASN490 4.1 39.9 1.0 CA A:ALA532 4.1 36.6 1.0 ND2 A:ASN490 4.2 39.9 1.0 N A:ASN533 4.4 38.9 1.0 CG2 A:THR485 4.4 37.7 1.0 CB A:ALA532 4.5 36.6 1.0 OG1 A:THR493 4.5 38.3 1.0 O A:THR523 4.5 43.9 1.0 CA A:ALA526 4.6 40.6 1.0 CB A:ASN533 4.6 38.9 1.0 CA A:ASN533 4.7 38.9 1.0 N A:GLU486 4.7 37.8 1.0 CA A:ALA488 4.9 33.9 1.0 CB A:SER489 5.0 37.9 1.0 N A:ALA488 5.0 33.9 1.0

Sodium binding site 2 out of 3 in the Human NAS1 Intermediate State 1


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Human NAS1 Intermediate State 1 within 5.0Å range: probe atom residue distance (Å) B Occ B:Na901 b:27.2 occ:1.00 O B:GLY258 2.4 37.7 1.0 O B:SER135 2.5 25.7 1.0 C B:SER139 2.7 29.6 1.0 OG B:SER135 2.9 25.7 1.0 N B:ASN140 2.9 29.4 1.0 CA B:SER139 3.0 29.6 1.0 O B:SER139 3.2 29.6 1.0 C B:GLY258 3.3 37.7 1.0 O B:GLY251 3.4 35.3 1.0 N B:SER139 3.4 29.6 1.0 C B:GLY251 3.5 35.3 1.0 C B:SER135 3.6 25.7 1.0 CA B:GLY258 3.7 37.7 1.0 CA B:GLY251 3.8 35.3 1.0 CA B:ASN140 3.8 29.4 1.0 OD1 B:ASN140 3.8 29.4 1.0 CB B:SER135 4.0 25.7 1.0 CG B:ASN140 4.1 29.4 1.0 N B:GLY252 4.1 35.7 1.0 CA B:SER135 4.1 25.7 1.0 N B:THR259 4.3 37.7 1.0 C B:LEU138 4.4 25.4 1.0 CB B:SER139 4.4 29.6 1.0 CB B:ASN140 4.4 29.4 1.0 CA B:GLY252 4.6 35.7 1.0 ND2 B:ASN140 4.6 29.4 1.0 N B:MET136 4.7 27.4 1.0 CA B:THR259 4.8 37.7 1.0 O B:LEU138 4.9 25.4 1.0 C B:MET136 4.9 27.4 1.0 N B:LEU138 4.9 25.4 1.0

Sodium binding site 3 out of 3 in the Human NAS1 Intermediate State 1


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Human NAS1 Intermediate State 1 within 5.0Å range: probe atom residue distance (Å) B Occ B:Na902 b:31.4 occ:1.00 O B:THR485 2.4 29.7 1.0 O B:ALA532 2.4 29.6 1.0 O B:ALA488 2.5 30.2 1.0 OD1 B:ASN490 2.5 28.4 1.0 OG1 B:THR485 2.5 29.7 1.0 C B:ALA532 3.3 29.6 1.0 C B:THR485 3.5 29.7 1.0 CB B:ALA526 3.6 27.3 1.0 C B:ALA488 3.6 30.2 1.0 N B:ASN490 3.7 28.4 1.0 CG B:ASN490 3.7 28.4 1.0 CB B:THR485 3.7 29.7 1.0 CA B:ALA532 3.8 29.6 1.0 CB B:ALA532 3.9 29.6 1.0 C B:SER489 3.9 29.2 1.0 CA B:SER489 3.9 29.2 1.0 CA B:THR485 3.9 29.7 1.0 N B:SER489 4.2 29.2 1.0 N B:ASN533 4.3 27.2 1.0 CA B:ASN490 4.4 28.4 1.0 CG2 B:THR485 4.5 29.7 1.0 ND2 B:ASN490 4.6 28.4 1.0 O B:SER489 4.6 29.2 1.0 CB B:ASN490 4.7 28.4 1.0 N B:GLU486 4.7 32.0 1.0 N B:ALA488 4.7 30.2 1.0 CA B:ALA488 4.8 30.2 1.0 CA B:ASN533 4.8 27.2 1.0

S.S.Zhang, S.S.Zhang. N/A N/A.
ISSN: ESSN 2375-2548
PubMed: 39576865
DOI: 10.1126/SCIADV.ADO6778