Zinc in PDB 7dry: Crystal Structure of Aspergillus Oryzae RIB2 Deaminase

The structure of Crystal Structure of Aspergillus Oryzae RIB2 Deaminase, PDB code: 7dry was solved by S.C.Chen, S.H.Liaw, C.H.Hsu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	21.85 / 1.44
Space group	P 41 21 2
Cell size a, b, c (Å), α, β, γ (°)	87.41, 87.41, 60.66, 90, 90, 90
R / Rfree (%)	17.2 / 19.8

The binding sites of Zinc atom in the Crystal Structure of Aspergillus Oryzae RIB2 Deaminase (pdb code 7dry). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the Crystal Structure of Aspergillus Oryzae RIB2 Deaminase, PDB code: 7dry:

Zinc binding site 1 out of 1 in the Crystal Structure of Aspergillus Oryzae RIB2 Deaminase


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 Aspergillus Oryzae RIB2 Deaminase within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn300 b:14.1 occ:1.00 ND1 A:HIS61 2.0 14.4 1.0 SG A:CYS102 2.2 14.5 1.0 SG A:CYS112 2.3 13.3 1.0 O A:HOH572 2.5 16.8 1.0 CE1 A:HIS61 2.9 16.7 1.0 CB A:CYS112 3.1 14.8 1.0 CG A:HIS61 3.1 12.6 1.0 CB A:CYS102 3.4 15.8 1.0 CB A:HIS61 3.6 11.5 1.0 N A:CYS102 3.8 13.0 1.0 N A:CYS112 3.9 13.6 1.0 O A:HOH426 4.1 16.1 1.0 NE2 A:HIS61 4.1 18.0 1.0 OE2 A:GLU63 4.1 20.1 1.0 CA A:CYS112 4.1 13.2 1.0 CA A:CYS102 4.1 14.4 1.0 CD2 A:HIS61 4.2 13.5 1.0 OE1 A:GLU63 4.3 13.0 1.0 CD A:GLU63 4.5 13.8 1.0 O A:HOH486 4.5 12.3 1.0 CD A:ARG105 4.6 22.2 1.0 O A:HOH535 4.7 30.3 1.0 O A:CYS102 4.8 16.3 1.0 C A:PRO101 4.9 12.9 1.0 C A:CYS102 4.9 16.3 1.0 CG A:ARG105 4.9 22.2 1.0 O A:HOH509 5.0 18.9 1.0 C A:PRO111 5.0 15.3 1.0

S.C.Chen, L.C.Ye, T.M.Yen, R.X.Zhu, C.Y.Li, S.C.Chang, S.H.Liaw, C.H.Hsu. Crystal Structures of Aspergillus Oryzae RIB2 Deaminase: the Functional Mechanism Involved in Riboflavin Biosynthesis. Iucrj V. 8 549 2021.
ISSN: ESSN 2052-2525
DOI: 10.1107/S205225252100275X