Zinc in PDB 1iwl: Crystal Structure of the Lipoprotein Localization Factor, Lola

The structure of Crystal Structure of the Lipoprotein Localization Factor, Lola, PDB code: 1iwl was solved by K.Takeda, H.Miyatake, N.Yokota, S.Matsuyama, H.Tokuda, K.Miki, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	40.00 / 1.65
Space group	I 2 2 2
Cell size a, b, c (Å), α, β, γ (°)	55.760, 75.370, 99.500, 90.00, 90.00, 90.00
R / Rfree (%)	22.2 / 24.9

The structure of Crystal Structure of the Lipoprotein Localization Factor, Lola also contains other interesting chemical elements:

Magnesium

(Mg)

2 atoms

The binding sites of Zinc atom in the Crystal Structure of the Lipoprotein Localization Factor, Lola (pdb code 1iwl). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Crystal Structure of the Lipoprotein Localization Factor, Lola, PDB code: 1iwl:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in the Crystal Structure of the Lipoprotein Localization Factor, Lola


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of the Lipoprotein Localization Factor, Lola within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn191 b:36.2 occ:1.00 OE2 A:GLU56 1.6 28.8 1.0 NE2 A:HIS50 2.0 28.0 1.0 O A:HOH354 2.3 37.1 1.0 O A:HOH353 2.4 40.6 1.0 CE1 A:HIS50 2.6 29.6 1.0 CD A:GLU56 2.8 29.8 1.0 CD2 A:HIS50 3.2 28.9 1.0 OE1 A:GLU56 3.6 36.8 1.0 CG A:GLU56 3.7 23.4 1.0 ND1 A:HIS50 3.8 32.4 1.0 CG A:HIS50 4.1 22.4 1.0

Zinc binding site 2 out of 3 in the Crystal Structure of the Lipoprotein Localization Factor, Lola


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of the Lipoprotein Localization Factor, Lola within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn192 b:42.8 occ:1.00 ND1 A:HIS17 1.7 32.1 1.0 O A:HOH355 2.1 31.8 1.0 CE1 A:HIS17 2.3 27.3 1.0 O A:HOH268 2.7 32.5 1.0 O A:HOH357 2.9 46.2 1.0 CG A:HIS17 3.0 26.6 1.0 NE2 A:GLN158 3.1 42.8 1.0 O A:HOH356 3.3 39.6 1.0 NE2 A:HIS17 3.5 30.3 1.0 CB A:HIS17 3.7 23.2 1.0 MG A:MG195 3.9 47.2 1.0 CD2 A:HIS17 3.9 25.1 1.0 CD A:GLN158 3.9 42.4 1.0 NE1 A:TRP40 4.3 20.6 1.0 OE1 A:GLN158 4.3 47.8 1.0 CG A:GLN158 5.0 36.6 1.0

Zinc binding site 3 out of 3 in the Crystal Structure of the Lipoprotein Localization Factor, Lola


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure of the Lipoprotein Localization Factor, Lola within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn193 b:56.5 occ:1.00 NE2 A:HIS138 1.9 27.6 1.0 O A:HOH359 2.0 31.6 1.0 O A:HOH358 2.1 40.5 1.0 O A:HOH360 2.6 47.0 1.0 CE1 A:HIS138 2.8 23.8 1.0 CD2 A:HIS138 3.0 26.7 1.0 O A:HOH282 3.6 35.5 1.0 ND1 A:HIS138 4.0 27.3 1.0 OD1 A:ASP134 4.1 30.7 1.0 CG A:HIS138 4.1 24.7 1.0 OD2 A:ASP134 4.2 25.2 1.0 O A:HOH228 4.4 29.9 1.0 CB A:THR136 4.5 21.9 1.0 CG A:ASP134 4.5 25.9 1.0 CA A:GLY132 4.6 20.2 1.0 CG2 A:THR136 4.7 21.6 1.0 N A:GLY132 4.7 19.3 1.0 O A:THR136 4.8 20.9 1.0 OD2 A:ASP111 4.9 25.9 1.0

K.Takeda, H.Miyatake, N.Yokota, S.Matsuyama, H.Tokuda, K.Miki. Crystal Structures of Bacterial Lipoprotein Localization Factors, Lola and Lolb Embo J. V. 22 3199 2003.
ISSN: ISSN 0261-4189
PubMed: 12839983
DOI: 10.1093/EMBOJ/CDG324