Zinc in PDB 3qvz: Crystal Structure of the Zn-RIDC1 Complex Stabilized By Bmoe Crosslinks Cocrystallized in the Presence of Cu(II)

The structure of Crystal Structure of the Zn-RIDC1 Complex Stabilized By Bmoe Crosslinks Cocrystallized in the Presence of Cu(II), PDB code: 3qvz was solved by E.N.Salgado, F.A.Tezcan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	42.86 / 2.64
Space group	P 61
Cell size a, b, c (Å), α, β, γ (°)	52.525, 52.525, 255.717, 90.00, 90.00, 120.00
R / Rfree (%)	26.1 / 30.6

The structure of Crystal Structure of the Zn-RIDC1 Complex Stabilized By Bmoe Crosslinks Cocrystallized in the Presence of Cu(II) also contains other interesting chemical elements:

Iron	(Fe)	4 atoms
Copper	(Cu)	8 atoms

The binding sites of Zinc atom in the Crystal Structure of the Zn-RIDC1 Complex Stabilized By Bmoe Crosslinks Cocrystallized in the Presence of Cu(II) (pdb code 3qvz). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 5 binding sites of Zinc where determined in the Crystal Structure of the Zn-RIDC1 Complex Stabilized By Bmoe Crosslinks Cocrystallized in the Presence of Cu(II), PDB code: 3qvz:
Jump to Zinc binding site number: 1; 2; 3; 4; 5;

Zinc binding site 1 out of 5 in the Crystal Structure of the Zn-RIDC1 Complex Stabilized By Bmoe Crosslinks Cocrystallized in the Presence of Cu(II)


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 Zn-RIDC1 Complex Stabilized By Bmoe Crosslinks Cocrystallized in the Presence of Cu(II) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn500 b:17.6 occ:1.00 NE2 A:HIS77 1.9 15.3 1.0 NE2 D:HIS63 1.9 15.2 1.0 OD2 C:ASP74 2.0 20.4 1.0 NE2 A:HIS73 2.1 14.5 1.0 CE1 D:HIS63 2.8 15.0 1.0 CG C:ASP74 2.8 17.8 1.0 CE1 A:HIS77 2.9 14.8 1.0 CD2 A:HIS77 2.9 14.1 1.0 CD2 D:HIS63 3.0 15.7 1.0 OD1 C:ASP74 3.0 16.0 1.0 CD2 A:HIS73 3.1 14.7 1.0 CE1 A:HIS73 3.1 14.2 1.0 ND1 D:HIS63 3.9 16.3 1.0 ND1 A:HIS77 4.0 15.6 1.0 CG D:HIS63 4.1 16.5 1.0 CG A:HIS77 4.1 17.3 1.0 ND1 A:HIS73 4.2 14.1 1.0 CB C:ASP74 4.3 17.5 1.0 CG A:HIS73 4.3 16.2 1.0 CD1 D:ILE67 4.6 11.5 1.0 O C:ASP74 4.8 17.4 1.0 CA C:ASP74 4.9 17.6 1.0

Zinc binding site 2 out of 5 in the Crystal Structure of the Zn-RIDC1 Complex Stabilized By Bmoe Crosslinks Cocrystallized in the Presence of Cu(II)


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 Zn-RIDC1 Complex Stabilized By Bmoe Crosslinks Cocrystallized in the Presence of Cu(II) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn111 b:46.7 occ:1.00 OE1 A:GLU8 2.0 30.0 1.0 OD2 A:ASP12 2.1 26.6 1.0 CG A:ASP12 2.7 23.4 1.0 OD1 A:ASP12 2.7 25.3 1.0 CD A:GLU8 2.9 29.2 1.0 OE2 A:GLU8 3.6 30.8 1.0 CG A:GLU8 3.8 25.6 1.0 CB A:ASP12 4.2 21.8 1.0 CB A:GLU8 4.4 21.9 1.0 O A:GLU8 4.7 21.5 1.0

Zinc binding site 3 out of 5 in the Crystal Structure of the Zn-RIDC1 Complex Stabilized By Bmoe Crosslinks Cocrystallized in the Presence of Cu(II)


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 Zn-RIDC1 Complex Stabilized By Bmoe Crosslinks Cocrystallized in the Presence of Cu(II) within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn500 b:16.4 occ:1.00 NE2 B:HIS77 2.0 15.5 1.0 OD2 D:ASP74 2.0 20.7 1.0 NE2 C:HIS63 2.1 15.2 1.0 NE2 B:HIS73 2.2 14.4 1.0 CG D:ASP74 2.7 17.9 1.0 OD1 D:ASP74 2.7 15.8 1.0 CD2 B:HIS77 3.0 14.5 1.0 CE1 B:HIS77 3.0 14.9 1.0 CE1 C:HIS63 3.0 15.2 1.0 CD2 C:HIS63 3.1 15.5 1.0 CE1 B:HIS73 3.1 14.5 1.0 CD2 B:HIS73 3.2 14.7 1.0 ND1 B:HIS77 4.1 15.5 1.0 CG B:HIS77 4.1 17.3 1.0 ND1 C:HIS63 4.1 16.0 1.0 CB D:ASP74 4.1 17.5 1.0 CG C:HIS63 4.2 16.4 1.0 ND1 B:HIS73 4.3 14.5 1.0 CG B:HIS73 4.3 16.2 1.0 CD1 C:ILE67 4.7 11.2 1.0 O D:ASP74 4.7 17.7 1.0 CA D:ASP74 4.9 17.6 1.0

Zinc binding site 4 out of 5 in the Crystal Structure of the Zn-RIDC1 Complex Stabilized By Bmoe Crosslinks Cocrystallized in the Presence of Cu(II)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Crystal Structure of the Zn-RIDC1 Complex Stabilized By Bmoe Crosslinks Cocrystallized in the Presence of Cu(II) within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn500 b:18.4 occ:1.00 OD2 A:ASP74 1.9 20.6 1.0 NE2 C:HIS77 1.9 15.2 1.0 NE2 B:HIS63 2.0 15.4 1.0 NE2 C:HIS73 2.2 14.3 1.0 CG A:ASP74 2.7 17.9 1.0 OD1 A:ASP74 2.9 16.1 1.0 CD2 C:HIS77 2.9 14.3 1.0 CE1 C:HIS77 2.9 14.8 1.0 CE1 B:HIS63 2.9 15.1 1.0 CD2 B:HIS63 3.1 15.8 1.0 CE1 C:HIS73 3.1 14.5 1.0 CD2 C:HIS73 3.2 14.4 1.0 ND1 C:HIS77 4.0 15.7 1.0 CG C:HIS77 4.1 17.1 1.0 ND1 B:HIS63 4.1 16.0 1.0 CB A:ASP74 4.1 17.4 1.0 CG B:HIS63 4.2 16.4 1.0 ND1 C:HIS73 4.2 14.6 1.0 CG C:HIS73 4.3 16.2 1.0 CD1 B:ILE67 4.6 11.2 1.0 O A:ASP74 4.7 17.6 1.0 CA A:ASP74 4.8 17.5 1.0

Zinc binding site 5 out of 5 in the Crystal Structure of the Zn-RIDC1 Complex Stabilized By Bmoe Crosslinks Cocrystallized in the Presence of Cu(II)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Crystal Structure of the Zn-RIDC1 Complex Stabilized By Bmoe Crosslinks Cocrystallized in the Presence of Cu(II) within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn500 b:15.7 occ:1.00 NE2 A:HIS63 2.0 15.1 1.0 NE2 D:HIS77 2.1 15.1 1.0 NE2 D:HIS73 2.1 14.6 1.0 OD2 B:ASP74 2.2 20.8 1.0 CG B:ASP74 2.9 17.6 1.0 OD1 B:ASP74 2.9 15.4 1.0 CE1 A:HIS63 3.0 15.1 1.0 CD2 A:HIS63 3.0 15.4 1.0 CE1 D:HIS73 3.0 14.7 1.0 CE1 D:HIS77 3.0 15.0 1.0 CD2 D:HIS77 3.1 14.1 1.0 CD2 D:HIS73 3.1 14.9 1.0 ND1 A:HIS63 4.0 16.1 1.0 CG A:HIS63 4.1 16.4 1.0 ND1 D:HIS77 4.1 15.8 1.0 ND1 D:HIS73 4.2 14.6 1.0 CG D:HIS77 4.2 17.4 1.0 CG D:HIS73 4.2 16.2 1.0 CB B:ASP74 4.3 17.4 1.0 CD1 A:ILE67 4.5 11.2 1.0 O B:ASP74 4.9 17.6 1.0

E.N.Salgado, J.D.Brodin, M.M.To, F.A.Tezcan. Templated Construction of A Zn-Selective Protein Dimerization Motif. Inorg.Chem. V. 50 6323 2011.
ISSN: ISSN 0020-1669
PubMed: 21648390
DOI: 10.1021/IC200746M