Zinc in PDB 4lam: Crystal Structure of Cordyceps Militaris Idcase D323N Mutant in Complex with 5-Carboxyl-Uracil

The structure of Crystal Structure of Cordyceps Militaris Idcase D323N Mutant in Complex with 5-Carboxyl-Uracil, PDB code: 4lam was solved by S.Xu, W.Li, J.Zhu, J.Ding, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	38.80 / 2.10
Space group	P 41
Cell size a, b, c (Å), α, β, γ (°)	77.361, 77.361, 134.421, 90.00, 90.00, 90.00
R / Rfree (%)	15.9 / 19

The binding sites of Zinc atom in the Crystal Structure of Cordyceps Militaris Idcase D323N Mutant in Complex with 5-Carboxyl-Uracil (pdb code 4lam). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Crystal Structure of Cordyceps Militaris Idcase D323N Mutant in Complex with 5-Carboxyl-Uracil, PDB code: 4lam:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of Cordyceps Militaris Idcase D323N Mutant in Complex with 5-Carboxyl-Uracil


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 Cordyceps Militaris Idcase D323N Mutant in Complex with 5-Carboxyl-Uracil within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn401 b:24.4 occ:1.00 O4 A:5CU402 2.1 19.1 1.0 O52 A:5CU402 2.2 20.1 1.0 OD1 A:ASN323 2.2 18.2 1.0 NE2 A:HIS12 2.3 13.8 1.0 NE2 A:HIS195 2.3 14.1 1.0 NE2 A:HIS14 2.3 16.7 1.0 C4 A:5CU402 3.1 22.2 1.0 CD2 A:HIS14 3.1 15.9 1.0 CD2 A:HIS12 3.2 13.8 1.0 C51 A:5CU402 3.2 25.3 1.0 CE1 A:HIS195 3.2 15.2 1.0 CG A:ASN323 3.2 18.4 1.0 CE1 A:HIS12 3.3 15.8 1.0 CD2 A:HIS195 3.3 13.7 1.0 CE1 A:HIS14 3.4 16.9 1.0 C5 A:5CU402 3.5 25.1 1.0 ND2 A:ASN323 3.9 17.6 1.0 O53 A:5CU402 4.3 22.9 1.0 CB A:ASN323 4.3 14.5 1.0 NE2 A:HIS251 4.3 18.1 1.0 ND1 A:HIS195 4.3 14.3 1.0 N3 A:5CU402 4.3 21.9 1.0 CG A:HIS14 4.3 16.6 1.0 CG A:HIS12 4.3 14.2 1.0 ND1 A:HIS12 4.4 15.7 1.0 CG A:HIS195 4.4 12.3 1.0 ND1 A:HIS14 4.4 15.2 1.0 CA A:ASN323 4.8 16.6 1.0 CE1 A:HIS251 4.8 15.5 1.0 CD2 A:PHE326 4.8 19.4 1.0 C6 A:5CU402 4.9 29.0 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of Cordyceps Militaris Idcase D323N Mutant in Complex with 5-Carboxyl-Uracil


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 Cordyceps Militaris Idcase D323N Mutant in Complex with 5-Carboxyl-Uracil within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn401 b:29.6 occ:1.00 O4 B:5CU402 2.2 26.1 1.0 O53 B:5CU402 2.2 23.4 1.0 OD1 B:ASN323 2.2 23.7 1.0 NE2 B:HIS195 2.3 18.6 1.0 NE2 B:HIS12 2.3 19.9 1.0 NE2 B:HIS14 2.4 16.4 1.0 C4 B:5CU402 3.2 27.8 1.0 CD2 B:HIS14 3.2 18.1 1.0 CE1 B:HIS195 3.2 20.7 1.0 C51 B:5CU402 3.2 27.7 1.0 CG B:ASN323 3.2 29.4 1.0 CD2 B:HIS12 3.2 15.8 1.0 CE1 B:HIS12 3.3 22.4 1.0 CD2 B:HIS195 3.4 18.4 1.0 CE1 B:HIS14 3.4 18.6 1.0 C5 B:5CU402 3.6 30.4 1.0 ND2 B:ASN323 3.9 29.9 1.0 CB B:ASN323 4.2 26.6 1.0 NE2 B:HIS251 4.2 18.7 1.0 O52 B:5CU402 4.3 24.3 1.0 ND1 B:HIS195 4.4 22.4 1.0 CG B:HIS14 4.4 19.5 1.0 N3 B:5CU402 4.4 31.1 1.0 CG B:HIS12 4.4 18.7 1.0 ND1 B:HIS12 4.4 20.9 1.0 CG B:HIS195 4.5 21.2 1.0 ND1 B:HIS14 4.5 20.4 1.0 CA B:ASN323 4.7 24.3 1.0 CD2 B:PHE326 4.8 29.1 1.0 CE1 B:HIS251 4.8 19.9 1.0 C6 B:5CU402 5.0 37.4 1.0

S.Xu, W.Li, J.Zhu, R.Wang, Z.Li, G.L.Xu, J.Ding. Crystal Structures of Isoorotate Decarboxylases Reveal A Novel Catalytic Mechanism of 5-Carboxyl-Uracil Decarboxylation and Shed Light on the Search For Dna Decarboxylase. Cell Res. V. 23 1296 2013.
ISSN: ISSN 1001-0602
PubMed: 23917530
DOI: 10.1038/CR.2013.107