Zinc in PDB 1nlt: The Crystal Structure of HSP40 YDJ1

The structure of The Crystal Structure of HSP40 YDJ1, PDB code: 1nlt was solved by J.Li, B.Sha, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	27.50 / 2.70
Space group	P 32 2 1
Cell size a, b, c (Å), α, β, γ (°)	55.025, 55.025, 161.870, 90.00, 90.00, 120.00
R / Rfree (%)	26.9 / 29.6

The binding sites of Zinc atom in the The Crystal Structure of HSP40 YDJ1 (pdb code 1nlt). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the The Crystal Structure of HSP40 YDJ1, PDB code: 1nlt:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the The Crystal Structure of HSP40 YDJ1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of The Crystal Structure of HSP40 YDJ1 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn351 b:76.3 occ:1.00 SG A:CYS146 1.4 71.2 1.0 SG A:CYS204 1.4 76.5 1.0 SG A:CYS201 1.5 79.5 1.0 SG A:CYS143 1.5 68.7 1.0 CB A:CYS204 2.7 79.3 1.0 CB A:CYS146 2.7 66.0 1.0 CB A:CYS143 2.8 59.0 1.0 CB A:CYS201 2.9 85.1 1.0 O A:GLU145 3.4 62.8 1.0 O A:HOH458 3.5 75.6 1.0 O A:HOH379 3.5 57.9 1.0 CA A:CYS204 3.8 79.5 1.0 CA A:CYS146 3.8 62.0 1.0 N A:CYS204 3.9 82.2 1.0 C A:GLU145 3.9 62.9 1.0 O A:HOH355 3.9 72.0 1.0 N A:CYS146 4.1 62.4 1.0 CA A:CYS143 4.2 52.9 1.0 CA A:CYS201 4.2 87.6 1.0 OG A:SER203 4.2 89.5 1.0 C A:SER203 4.5 85.3 1.0 C A:CYS204 4.5 77.7 1.0 C A:CYS143 4.6 53.0 1.0 O A:HOH412 4.6 60.6 1.0 O A:CYS143 4.8 52.9 1.0 N A:CYS201 4.8 89.7 1.0 CA A:LYS208 4.9 44.0 1.0 O A:SER203 4.9 86.1 1.0 N A:GLU145 5.0 60.4 1.0 CA A:GLU145 5.0 63.6 1.0

Zinc binding site 2 out of 2 in the The Crystal Structure of HSP40 YDJ1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of The Crystal Structure of HSP40 YDJ1 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn352 b:0.8 occ:1.00 SG A:CYS162 1.4 0.5 1.0 SG A:CYS185 1.4 0.2 1.0 SG A:CYS159 1.4 0.2 1.0 SG A:CYS188 1.4 0.9 1.0 CB A:CYS185 2.7 0.2 1.0 CB A:CYS159 2.7 0.3 1.0 CB A:CYS162 2.8 0.5 1.0 CB A:CYS188 2.9 0.2 1.0 O A:HOH436 3.2 77.8 1.0 O A:CYS185 3.4 0.2 1.0 N A:CYS162 3.6 0.4 1.0 CA A:CYS162 3.7 0.3 1.0 CA A:CYS185 3.8 1.0 1.0 C A:CYS185 3.9 0.4 1.0 O A:CYS162 4.0 0.3 1.0 CA A:CYS159 4.0 0.3 1.0 CA A:CYS188 4.1 0.0 1.0 C A:SER161 4.2 0.1 1.0 CA A:GLY192 4.3 0.6 1.0 N A:CYS188 4.3 0.9 1.0 C A:CYS162 4.4 0.3 1.0 O A:GLN165 4.4 80.1 1.0 CA A:GLY166 4.4 76.4 1.0 C A:CYS159 4.5 0.9 1.0 CB A:SER161 4.6 0.4 1.0 N A:CYS185 4.6 0.6 1.0 O A:CYS159 4.6 0.9 1.0 C A:GLY192 4.7 0.9 1.0 N A:SER161 4.7 0.5 1.0 C A:CYS188 4.7 0.0 1.0 CA A:SER161 4.7 1.0 1.0 O A:SER161 4.8 0.3 1.0 C A:VAL187 4.9 0.0 1.0 N A:ASP186 4.9 0.0 1.0 N A:HIS189 5.0 0.3 1.0 C A:GLN165 5.0 79.4 1.0

J.Li, X.Qian, B.Sha. The Crystal Structure of the Yeast HSP40 YDJ1 Complexed with Its Peptide Substrate. Structure V. 11 1475 2003.
ISSN: ISSN 0969-2126
PubMed: 14656432
DOI: 10.1016/J.STR.2003.10.012