Sodium in PDB 8a1w: Sodium Pumping Nadh-Quinone Oxidoreductase with Substrate Q1

All present enzymatic activity of Sodium Pumping Nadh-Quinone Oxidoreductase with Substrate Q1:
7.2.1.1;

The structure of Sodium Pumping Nadh-Quinone Oxidoreductase with Substrate Q1 also contains other interesting chemical elements:

Iron

(Fe)

4 atoms

The binding sites of Sodium atom in the Sodium Pumping Nadh-Quinone Oxidoreductase with Substrate Q1 (pdb code 8a1w). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Sodium Pumping Nadh-Quinone Oxidoreductase with Substrate Q1, PDB code: 8a1w:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Sodium Pumping Nadh-Quinone Oxidoreductase with Substrate Q1


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Sodium Pumping Nadh-Quinone Oxidoreductase with Substrate Q1 within 5.0Å range: probe atom residue distance (Å) B Occ B:Na509 b:22.2 occ:1.00 O B:VAL275 2.3 14.9 1.0 O B:VAL332 2.3 12.3 1.0 O B:ALA263 2.4 12.1 1.0 O B:HOH692 2.5 12.2 1.0 HD11 B:ILE268 2.9 13.1 1.0 O B:HOH602 3.1 13.8 1.0 C B:VAL332 3.3 1.4 1.0 C B:ALA263 3.3 9.2 1.0 C B:VAL275 3.4 11.1 1.0 HB1 B:ALA263 3.4 11.2 1.0 HB B:VAL332 3.4 10.9 1.0 H B:THR277 3.6 11.7 1.0 HA B:VAL332 3.6 11.0 1.0 HA B:VAL275 3.6 11.8 1.0 OG1 B:THR277 3.7 15.9 1.0 CD1 B:ILE268 3.7 12.4 1.0 HA B:ALA263 3.7 12.3 1.0 HD13 B:ILE268 3.7 13.0 1.0 HA2 B:GLY266 3.8 12.2 1.0 CA B:VAL332 3.9 7.0 1.0 CA B:ALA263 4.0 8.9 1.0 HA B:LEU333 4.0 9.5 1.0 HG1 B:THR277 4.1 12.1 1.0 CA B:VAL275 4.1 14.1 1.0 HA B:PHE264 4.1 11.8 1.0 CB B:VAL332 4.1 10.1 1.0 CB B:ALA263 4.2 8.0 1.0 N B:THR277 4.2 15.6 1.0 N B:LEU333 4.2 9.2 1.0 HG12 B:ILE268 4.3 13.0 1.0 O B:GLU274 4.3 16.5 1.0 HA B:SER276 4.3 11.5 1.0 HD12 B:ILE268 4.3 13.7 1.0 N B:PHE264 4.3 7.5 1.0 N B:SER276 4.5 11.0 1.0 HB B:THR277 4.5 11.4 1.0 H B:GLY266 4.5 12.3 1.0 CG1 B:ILE268 4.5 12.7 1.0 O B:HOH618 4.5 4.3 1.0 HD23 B:LEU333 4.6 8.8 1.0 CB B:THR277 4.6 11.6 1.0 CA B:LEU333 4.6 4.7 1.0 CA B:PHE264 4.6 7.0 1.0 HG23 B:VAL332 4.7 9.7 1.0 CA B:GLY266 4.7 11.6 1.0 HB3 B:ALA263 4.7 11.6 1.0 HG13 B:ILE268 4.7 13.2 1.0 HB B:VAL275 4.7 11.6 1.0 CA B:SER276 4.7 7.6 1.0 O B:PHE264 4.8 8.7 1.0 N B:GLY266 4.8 9.2 1.0 C B:SER276 4.8 12.6 1.0 HB2 B:ALA263 4.8 11.6 1.0 C B:PHE264 4.8 8.6 1.0 CA B:THR277 4.9 7.4 1.0 H B:LEU333 5.0 10.0 1.0

Sodium binding site 2 out of 2 in the Sodium Pumping Nadh-Quinone Oxidoreductase with Substrate Q1


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Sodium Pumping Nadh-Quinone Oxidoreductase with Substrate Q1 within 5.0Å range: probe atom residue distance (Å) B Occ B:Na510 b:21.1 occ:1.00 O B:TYR378 2.4 18.7 1.0 O B:ASN375 2.4 17.2 1.0 O B:HOH695 2.4 20.3 1.0 O B:ILE371 2.5 13.6 1.0 O B:ARG372 2.5 0.1 1.0 HA B:ARG372 2.9 10.0 1.0 C B:ARG372 3.1 3.7 1.0 HA B:PRO379 3.3 13.7 1.0 H B:ASN375 3.3 10.9 1.0 C B:ASN375 3.4 11.8 1.0 CA B:ARG372 3.4 8.5 1.0 HB3 B:ASN375 3.5 12.3 1.0 C B:TYR378 3.5 12.1 1.0 C B:ILE371 3.6 6.4 1.0 O B:HOH622 3.7 16.6 1.0 O B:HOH609 3.8 17.3 1.0 N B:ASN375 4.0 9.5 1.0 CA B:PRO379 4.0 12.6 1.0 N B:ARG372 4.0 13.8 1.0 N B:VAL373 4.0 3.8 1.0 H B:TYR378 4.0 11.4 1.0 CA B:ASN375 4.1 10.6 1.0 O B:HOH681 4.1 11.8 1.0 O B:PRO379 4.1 13.8 1.0 C B:PRO379 4.2 9.3 1.0 N B:PRO379 4.2 14.0 1.0 HA B:PRO376 4.2 12.1 1.0 CB B:ASN375 4.2 12.0 1.0 HG22 B:ILE371 4.4 10.8 1.0 N B:PRO376 4.4 16.0 1.0 N B:TYR378 4.5 10.9 1.0 HB2 B:TYR378 4.5 12.3 1.0 C B:VAL373 4.5 6.4 1.0 CA B:TYR378 4.5 10.1 1.0 H B:VAL373 4.6 9.4 1.0 CA B:PRO376 4.6 11.2 1.0 HG3 B:MET322 4.6 11.3 1.0 HA B:VAL373 4.6 10.2 1.0 O B:VAL373 4.6 16.6 1.0 CA B:VAL373 4.7 4.9 1.0 C B:PRO376 4.7 8.2 1.0 O B:PRO376 4.7 15.4 1.0 HG23 B:ILE371 4.8 11.0 1.0 CB B:ARG372 4.8 1.8 1.0 N B:VAL374 4.8 7.9 1.0 H B:ARG372 4.8 10.9 1.0 HB2 B:ASN375 4.9 10.3 1.0 H B:VAL374 4.9 9.1 1.0 HB3 B:ARG372 4.9 9.1 1.0 CA B:ILE371 4.9 5.7 1.0 HE2 B:MET322 4.9 11.1 1.0 HA B:ILE371 4.9 11.3 1.0 N B:GLU380 5.0 12.2 1.0 O B:HOH713 5.0 24.6 1.0

J.-L.Hau, J.-L.Hau, S.Kaltwasser, J.Vonck, G.Fritz, J.Steuber. N/A N/A.