Zinc in PDB 8czk: Human LANCL1 Bound to Gsh and Dhb-Erk Peptide

All present enzymatic activity of Human LANCL1 Bound to Gsh and Dhb-Erk Peptide:
2.5.1.18;

The structure of Human LANCL1 Bound to Gsh and Dhb-Erk Peptide, PDB code: 8czk was solved by C.Ongpipattanakul, S.K.Nair, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	25.00 / 1.91
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	55.688, 120.562, 144.224, 90, 90, 90
R / Rfree (%)	18.4 / 21.3

The binding sites of Zinc atom in the Human LANCL1 Bound to Gsh and Dhb-Erk Peptide (pdb code 8czk). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Human LANCL1 Bound to Gsh and Dhb-Erk Peptide, PDB code: 8czk:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Human LANCL1 Bound to Gsh and Dhb-Erk Peptide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Human LANCL1 Bound to Gsh and Dhb-Erk Peptide within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn500 b:28.4 occ:1.00 ND1 A:HIS323 2.0 23.1 1.0 SG A:CYS276 2.2 24.8 1.0 SG A:CYS322 2.3 22.8 1.0 SG2 C:GSH501 2.6 35.8 1.0 CE1 A:HIS323 2.9 22.9 1.0 CG C:DBU4 3.1 51.5 1.0 CB A:CYS276 3.1 22.9 1.0 CG A:HIS323 3.1 24.5 1.0 CB A:CYS322 3.3 21.7 1.0 O A:CYS322 3.3 21.2 1.0 CB2 C:GSH501 3.4 37.0 1.0 C A:CYS322 3.4 20.8 1.0 CB C:DBU4 3.5 49.9 1.0 CB A:HIS323 3.6 24.4 1.0 CA2 C:GSH501 3.7 41.9 1.0 N A:HIS323 3.9 23.4 1.0 CA A:CYS322 3.9 21.3 1.0 NE2 A:HIS323 4.1 22.7 1.0 OH A:TYR62 4.1 26.3 1.0 CD2 A:HIS323 4.2 23.4 1.0 CA A:HIS323 4.3 25.0 1.0 CA A:CYS276 4.3 22.6 1.0 N A:CYS276 4.5 21.2 1.0 N2 C:GSH501 4.6 38.4 1.0 CA C:DBU4 4.7 55.2 1.0 O2 C:GSH501 4.8 44.3 1.0 C2 C:GSH501 4.8 44.5 1.0 ND1 A:HIS274 4.8 25.8 1.0 O A:HOH605 4.9 28.6 1.0

Zinc binding site 2 out of 2 in the Human LANCL1 Bound to Gsh and Dhb-Erk Peptide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Human LANCL1 Bound to Gsh and Dhb-Erk Peptide within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn500 b:25.6 occ:1.00 ND1 B:HIS323 2.0 20.2 1.0 SG B:CYS276 2.2 23.6 1.0 SG B:CYS322 2.3 23.1 1.0 SG2 D:GSH501 2.7 27.7 1.0 CE1 B:HIS323 2.8 20.1 1.0 CB B:CYS276 3.1 22.2 1.0 CG B:HIS323 3.1 21.1 1.0 O B:CYS322 3.2 19.9 1.0 CG D:DBU4 3.3 33.6 1.0 CB B:CYS322 3.3 20.6 1.0 C B:CYS322 3.4 20.0 1.0 CB2 D:GSH501 3.4 26.7 1.0 CB B:HIS323 3.6 21.0 1.0 CB D:DBU4 3.6 34.8 1.0 CA2 D:GSH501 3.8 30.1 1.0 N B:HIS323 3.8 21.3 1.0 CA B:CYS322 3.9 20.5 1.0 NE2 B:HIS323 4.0 20.5 1.0 OH B:TYR62 4.1 23.7 1.0 CD2 B:HIS323 4.2 20.0 1.0 CA B:HIS323 4.3 22.0 1.0 CA B:CYS276 4.4 21.7 1.0 N B:CYS276 4.5 20.7 1.0 N2 D:GSH501 4.6 28.5 1.0 ND1 B:HIS274 4.7 24.3 1.0 O2 D:GSH501 4.8 32.8 1.0 CA D:DBU4 4.8 39.4 1.0 C2 D:GSH501 4.8 31.1 1.0 O B:HOH606 4.9 27.3 1.0

C.Ongpipattanakul, S.Liu, Y.Luo, S.K.Nair, W.A.Van Der Donk. The Mechanism of Thia-Michael Addition Catalyzed By Lanc Enzymes. Proc.Natl.Acad.Sci.Usa V. 120 23120 2023.
ISSN: ESSN 1091-6490
PubMed: 36634136
DOI: 10.1073/PNAS.2217523120