Zinc in PDB 8chx: Structure and Function of Lola From Vibrio Cholerae

The structure of Structure and Function of Lola From Vibrio Cholerae, PDB code: 8chx was solved by D.Jaiman, R.Nagampalli, K.Persson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	42.80 / 1.80
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	46.485, 91.394, 48.459, 90, 90.04, 90
R / Rfree (%)	21 / 25.5

The binding sites of Zinc atom in the Structure and Function of Lola From Vibrio Cholerae (pdb code 8chx). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 7 binding sites of Zinc where determined in the Structure and Function of Lola From Vibrio Cholerae, PDB code: 8chx:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7;

Zinc binding site 1 out of 7 in the Structure and Function of Lola From Vibrio Cholerae


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure and Function of Lola From Vibrio Cholerae within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn201 b:25.5 occ:1.00 OD1 A:ASP71 2.0 33.3 1.0 OD2 A:ASP86 2.2 27.1 1.0 O A:HOH332 2.2 22.6 1.0 OD2 A:ASP71 2.5 37.0 1.0 O A:HOH301 2.5 17.0 1.0 CG A:ASP71 2.6 28.6 1.0 CG A:ASP86 2.8 24.8 1.0 OD1 A:ASP86 2.9 19.6 1.0 O A:GLU72 3.6 17.8 1.0 O A:HOH347 3.9 33.0 1.0 CB A:ASP71 4.1 24.2 1.0 CB A:PHE88 4.1 18.4 1.0 CB A:ASP86 4.3 18.0 1.0 O A:HOH531 4.3 33.1 1.0 C A:GLU72 4.6 20.5 1.0 N A:GLU72 4.7 19.2 1.0 N A:PHE88 4.7 17.7 1.0 C A:ASP71 4.8 23.6 1.0 CA A:ASP71 4.8 23.7 1.0 CB A:ASN73 4.9 19.8 1.0 CD A:PRO87 4.9 20.2 1.0 CA A:ASP86 4.9 20.1 1.0 O A:HOH502 5.0 29.9 1.0

Zinc binding site 2 out of 7 in the Structure and Function of Lola From Vibrio Cholerae


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure and Function of Lola From Vibrio Cholerae within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn202 b:25.3 occ:1.00 NE2 A:HIS121 2.2 22.3 1.0 CD2 A:HIS121 2.9 24.0 1.0 CE1 A:HIS121 3.3 21.1 1.0 CG A:HIS121 4.2 23.0 1.0 ND1 A:HIS121 4.3 21.1 1.0

Zinc binding site 3 out of 7 in the Structure and Function of Lola From Vibrio Cholerae


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Structure and Function of Lola From Vibrio Cholerae within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn203 b:27.4 occ:0.52 OE1 A:GLU68 1.9 31.5 1.0 O A:HOH444 2.0 28.9 1.0 O A:HOH383 2.0 32.9 1.0 CD A:GLU68 2.8 32.0 1.0 OE2 A:GLU66 2.8 37.7 1.0 OE2 A:GLU68 3.0 34.1 1.0 CD A:GLU66 3.3 35.4 1.0 CG A:GLU66 3.5 27.4 1.0 O A:HOH392 4.1 31.8 1.0 OE2 A:GLU72 4.2 37.8 1.0 CG A:GLU68 4.2 30.3 1.0 OE1 A:GLU66 4.2 27.7 1.0 CG A:GLU72 4.3 23.4 1.0 O A:THR67 4.4 16.3 1.0 CD A:GLU72 4.7 38.3 1.0 O A:HOH515 4.7 19.8 1.0 O A:HOH315 4.8 33.4 1.0 O A:HOH328 4.9 37.6 1.0 O A:HOH555 4.9 29.6 1.0 CB A:GLU66 5.0 16.2 1.0

Zinc binding site 4 out of 7 in the Structure and Function of Lola From Vibrio Cholerae


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Structure and Function of Lola From Vibrio Cholerae within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn204 b:36.7 occ:0.53 OE1 A:GLU24 2.0 45.8 1.0 CD A:GLU24 3.0 44.7 1.0 CG A:GLU24 3.3 23.5 1.0 OE2 A:GLU24 4.1 47.6 1.0 CB A:ASP20 4.1 21.3 1.0 CG A:ASP20 4.4 34.7 1.0 O A:ASP20 4.4 22.4 1.0 OD1 A:ASP20 4.5 28.8 1.0 CA A:ASP20 4.8 18.5 1.0 O A:HOH425 4.8 42.0 0.5 CB A:GLU24 4.8 25.2 1.0 C A:ASP20 4.8 20.1 1.0

Zinc binding site 5 out of 7 in the Structure and Function of Lola From Vibrio Cholerae


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Structure and Function of Lola From Vibrio Cholerae within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn205 b:31.5 occ:0.45 O A:HOH307 1.9 36.3 1.0 O A:HOH322 2.1 36.7 1.0 O A:HOH319 2.4 29.1 1.0 O A:HOH483 2.6 34.3 1.0 O A:LYS189 3.5 30.7 1.0 OE1 A:GLU90 3.9 35.1 1.0 O A:HOH473 4.0 27.1 1.0 OE2 A:GLU90 4.1 30.1 1.0 CD A:GLU90 4.3 24.6 1.0 CG2 A:VAL191 4.6 32.2 1.0 O A:HOH571 4.6 30.9 1.0 CB A:PRO188 4.7 34.8 1.0 C A:LYS189 4.7 29.7 1.0 O A:HOH487 4.7 35.4 1.0

Zinc binding site 6 out of 7 in the Structure and Function of Lola From Vibrio Cholerae


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Structure and Function of Lola From Vibrio Cholerae within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn201 b:18.4 occ:0.16 O B:LEU75 2.1 12.1 1.0 O B:PHE63 2.1 13.7 1.0 CA B:VAL76 2.4 13.7 1.0 CA B:ARG64 2.5 14.1 1.0 C B:PHE63 2.7 13.0 1.0 C B:LEU75 2.7 13.2 1.0 N B:ARG64 2.9 15.7 1.0 N B:VAL76 2.9 15.2 1.0 N B:TRP65 3.0 13.9 1.0 CD2 B:PHE63 3.2 22.1 1.0 C B:ARG64 3.2 20.0 1.0 CB B:VAL76 3.3 16.6 1.0 C B:VAL76 3.4 15.4 1.0 N B:SER77 3.4 13.2 1.0 CE2 B:PHE63 3.6 21.7 1.0 CB B:ARG64 3.7 15.5 1.0 CG2 B:VAL76 3.8 14.2 1.0 CG B:PHE63 3.9 15.5 1.0 CA B:PHE63 4.0 16.1 1.0 CA B:LEU75 4.1 13.5 1.0 CG B:ARG64 4.2 15.9 1.0 CA B:TRP65 4.2 12.1 1.0 CB B:PHE63 4.3 21.3 1.0 O B:ARG64 4.4 16.8 1.0 CB B:LEU75 4.4 11.0 1.0 CB B:TRP65 4.4 15.2 1.0 O B:VAL76 4.5 13.6 1.0 CG1 B:VAL76 4.6 13.8 1.0 CZ B:PHE63 4.7 17.2 1.0 N B:PHE63 4.7 11.4 1.0 N B:LEU75 4.8 12.2 1.0 CA B:SER77 4.8 12.3 1.0 CD1 B:PHE63 4.9 13.0 1.0 O B:TRP65 5.0 14.5 1.0

Zinc binding site 7 out of 7 in the Structure and Function of Lola From Vibrio Cholerae


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Structure and Function of Lola From Vibrio Cholerae within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn202 b:37.6 occ:0.58 O B:HOH304 2.3 43.6 1.0 O B:HOH330 2.3 31.5 1.0 C B:ASN198 3.1 38.8 1.0 O B:ASN198 3.2 46.8 1.0 O B:HOH497 3.8 44.7 1.0 OE1 B:GLN196 4.0 23.1 1.0 O B:GLN196 4.1 22.6 1.0 CA B:ASN198 4.4 32.3 1.0 O B:HOH417 4.5 28.8 1.0 N B:ASN198 4.7 25.3 1.0 C B:GLN196 4.7 26.6 1.0 CD B:GLN196 5.0 25.6 1.0

D.Jaiman, R.Nagampalli, K.Persson. A Comparative Analysis of Lipoprotein Transport Proteins: Lola and Lolb From Vibrio Cholerae and Lola From Porphyromonas Gingivalis. Sci Rep V. 13 6605 2023.
ISSN: ESSN 2045-2322
PubMed: 37095149
DOI: 10.1038/S41598-023-33705-Y