Zinc in PDB 8xm6: Cryo-Em Structure of Human ZNT1 Wt, in the Absence of Zinc, Determined in An Outward-Facing Conformation

The binding sites of Zinc atom in the Cryo-Em Structure of Human ZNT1 Wt, in the Absence of Zinc, Determined in An Outward-Facing Conformation (pdb code 8xm6). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 6 binding sites of Zinc where determined in the Cryo-Em Structure of Human ZNT1 Wt, in the Absence of Zinc, Determined in An Outward-Facing Conformation, PDB code: 8xm6:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6;

Zinc binding site 1 out of 6 in the Cryo-Em Structure of Human ZNT1 Wt, in the Absence of Zinc, Determined in An Outward-Facing Conformation


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Cryo-Em Structure of Human ZNT1 Wt, in the Absence of Zinc, Determined in An Outward-Facing Conformation within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn601 b:83.6 occ:1.00 OE1 B:GLU420 2.0 65.5 1.0 NE2 B:HIS370 2.0 55.5 1.0 ND1 B:HIS387 2.0 54.9 1.0 SG B:CYS433 2.3 72.8 1.0 OE2 B:GLU420 2.4 65.5 1.0 CD B:GLU420 2.5 65.5 1.0 CE1 B:HIS370 2.7 55.5 1.0 CG B:HIS387 2.8 54.9 1.0 CB B:HIS387 3.0 54.9 1.0 CE1 B:HIS387 3.1 54.9 1.0 CD2 B:HIS370 3.2 55.5 1.0 CB B:CYS433 3.7 72.8 1.0 CG B:GLU420 3.9 65.5 1.0 ND1 B:HIS370 3.9 55.5 1.0 CD2 B:HIS387 4.0 54.9 1.0 NE2 B:HIS387 4.1 54.9 1.0 OE1 B:GLN418 4.1 55.0 1.0 CG B:HIS370 4.2 55.5 1.0 CA B:CYS433 4.2 72.8 1.0 CA B:HIS387 4.5 54.9 1.0 CB B:GLU420 4.6 65.5 1.0 CG B:GLU371 5.0 45.8 1.0

Zinc binding site 2 out of 6 in the Cryo-Em Structure of Human ZNT1 Wt, in the Absence of Zinc, Determined in An Outward-Facing Conformation


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Cryo-Em Structure of Human ZNT1 Wt, in the Absence of Zinc, Determined in An Outward-Facing Conformation within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn602 b:87.2 occ:1.00 ND1 B:HIS413 2.6 65.5 1.0 SG A:CYS437 2.8 69.6 1.0 ND1 B:HIS408 2.8 64.3 1.0 CE1 B:HIS408 3.1 64.3 1.0 CE1 B:HIS413 3.3 65.5 1.0 CB A:CYS437 3.5 69.6 1.0 CG B:HIS408 3.7 64.3 1.0 CG B:HIS413 3.8 65.5 1.0 NE2 B:HIS408 4.0 64.3 1.0 CB B:HIS413 4.3 65.5 1.0 CD2 B:HIS408 4.3 64.3 1.0 CB B:HIS408 4.4 64.3 1.0 O B:ILE412 4.4 59.1 1.0 CA A:CYS437 4.4 69.6 1.0 NE2 B:HIS413 4.5 65.5 1.0 CA B:HIS408 4.6 64.3 1.0 CD2 B:HIS413 4.8 65.5 1.0 CA B:HIS413 4.8 65.5 1.0

Zinc binding site 3 out of 6 in the Cryo-Em Structure of Human ZNT1 Wt, in the Absence of Zinc, Determined in An Outward-Facing Conformation


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Cryo-Em Structure of Human ZNT1 Wt, in the Absence of Zinc, Determined in An Outward-Facing Conformation within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn603 b:70.3 occ:1.00 OE2 B:GLU371 2.1 45.8 1.0 NE2 B:HIS373 2.1 36.8 1.0 SG B:CYS447 2.3 50.9 1.0 SG B:CYS446 2.3 49.4 1.0 CE1 B:HIS373 2.7 36.8 1.0 CD B:GLU371 2.9 45.8 1.0 OE1 B:GLU371 3.2 45.8 1.0 N B:CYS447 3.3 50.9 1.0 CB B:CYS447 3.4 50.9 1.0 CB B:CYS446 3.4 49.4 1.0 CD2 B:HIS373 3.4 36.8 1.0 CA B:CYS447 3.9 50.9 1.0 C B:CYS446 3.9 49.4 1.0 ND1 B:HIS373 3.9 36.8 1.0 CA B:CYS446 4.1 49.4 1.0 CG B:HIS373 4.3 36.8 1.0 CG B:GLU371 4.4 45.8 1.0 N B:CYS446 4.4 49.4 1.0 C B:CYS447 4.7 50.9 1.0 CA B:GLU371 4.7 45.8 1.0 CB B:GLU371 4.7 45.8 1.0 O B:CYS446 4.8 49.4 1.0

Zinc binding site 4 out of 6 in the Cryo-Em Structure of Human ZNT1 Wt, in the Absence of Zinc, Determined in An Outward-Facing Conformation


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Cryo-Em Structure of Human ZNT1 Wt, in the Absence of Zinc, Determined in An Outward-Facing Conformation within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn601 b:85.4 occ:1.00 ND1 A:HIS387 2.0 57.2 1.0 NE2 A:HIS370 2.0 59.4 1.0 OE2 A:GLU420 2.1 68.0 1.0 SG A:CYS433 2.3 71.8 1.0 CG A:HIS387 2.6 57.2 1.0 CB A:HIS387 2.6 57.2 1.0 CD A:GLU420 2.7 68.0 1.0 OE1 A:GLU420 2.8 68.0 1.0 CD2 A:HIS370 2.9 59.4 1.0 CE1 A:HIS370 3.0 59.4 1.0 CE1 A:HIS387 3.2 57.2 1.0 CB A:CYS433 3.6 71.8 1.0 CD2 A:HIS387 3.9 57.2 1.0 CG A:HIS370 4.0 59.4 1.0 ND1 A:HIS370 4.0 59.4 1.0 CA A:HIS387 4.0 57.2 1.0 CG A:GLU420 4.0 68.0 1.0 NE2 A:HIS387 4.1 57.2 1.0 NE2 A:GLN418 4.4 55.7 1.0 CA A:CYS433 4.5 71.8 1.0 C A:HIS387 4.6 57.2 1.0 O A:HIS370 4.9 59.4 1.0 OE1 A:GLU371 4.9 49.2 1.0 O A:HIS387 5.0 57.2 1.0

Zinc binding site 5 out of 6 in the Cryo-Em Structure of Human ZNT1 Wt, in the Absence of Zinc, Determined in An Outward-Facing Conformation


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Cryo-Em Structure of Human ZNT1 Wt, in the Absence of Zinc, Determined in An Outward-Facing Conformation within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn602 b:83.8 occ:1.00 SG B:CYS437 2.0 75.0 1.0 ND1 A:HIS413 2.1 55.6 1.0 NE2 A:HIS408 2.2 63.8 1.0 CD2 A:HIS408 2.9 63.8 1.0 CG A:HIS413 3.0 55.6 1.0 CE1 A:HIS408 3.1 63.8 1.0 CB B:CYS437 3.1 75.0 1.0 CE1 A:HIS413 3.1 55.6 1.0 CB A:HIS413 3.2 55.6 1.0 CG A:HIS408 3.9 63.8 1.0 ND1 A:HIS408 3.9 63.8 1.0 CA A:HIS413 4.1 55.6 1.0 O B:THR439 4.1 79.0 1.0 CD2 A:HIS413 4.1 55.6 1.0 NE2 A:HIS413 4.2 55.6 1.0 CA B:CYS437 4.5 75.0 1.0 OE1 B:GLN445 4.6 53.1 1.0 N B:ARG438 4.7 79.6 1.0 O A:HIS413 4.9 55.6 1.0 C A:HIS413 5.0 55.6 1.0

Zinc binding site 6 out of 6 in the Cryo-Em Structure of Human ZNT1 Wt, in the Absence of Zinc, Determined in An Outward-Facing Conformation


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Cryo-Em Structure of Human ZNT1 Wt, in the Absence of Zinc, Determined in An Outward-Facing Conformation within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn603 b:63.3 occ:1.00 OE2 A:GLU371 2.0 49.2 1.0 NE2 A:HIS373 2.1 39.8 1.0 SG A:CYS446 2.3 57.7 1.0 SG A:CYS447 2.3 57.2 1.0 CD A:GLU371 2.7 49.2 1.0 CE1 A:HIS373 3.1 39.8 1.0 CD2 A:HIS373 3.1 39.8 1.0 O A:CYS446 3.1 57.7 1.0 CG A:GLU371 3.1 49.2 1.0 C A:CYS446 3.6 57.7 1.0 CB A:GLU371 3.6 49.2 1.0 OE1 A:GLU371 3.6 49.2 1.0 CB A:CYS446 3.7 57.7 1.0 CB A:CYS447 4.0 57.2 1.0 CA A:CYS446 4.2 57.7 1.0 ND1 A:HIS373 4.2 39.8 1.0 N A:CYS447 4.2 57.2 1.0 CG A:HIS373 4.2 39.8 1.0 CA A:GLU371 4.4 49.2 1.0 CA A:CYS447 4.6 57.2 1.0 N A:CYS446 4.7 57.7 1.0 C A:CYS447 4.9 57.2 1.0

Y.Long, Z.Zhu, Z.Zhou, C.Yang, Y.Chao, Y.Wang, Q.Zhou, M.W.Wang, Q.Qu. Structural Insights Into Human Zinc Transporter ZNT1 Mediated Zn 2+ Efflux. Embo Rep. 2024.
ISSN: ESSN 1469-3178
PubMed: 39390258
DOI: 10.1038/S44319-024-00287-3