Zinc in PDB 3m52: Crystal Structure of the Btb Domain From the Miz-1/ZBTB17 Transcription Regulator

The structure of Crystal Structure of the Btb Domain From the Miz-1/ZBTB17 Transcription Regulator, PDB code: 3m52 was solved by P.J.Stogios, J.A.Cuesta-Seijo, L.Chen, G.G.Prive, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	41.20 / 2.59
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	33.023, 80.935, 95.713, 90.00, 90.00, 90.00
R / Rfree (%)	22.5 / 26.7

The binding sites of Zinc atom in the Crystal Structure of the Btb Domain From the Miz-1/ZBTB17 Transcription Regulator (pdb code 3m52). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 6 binding sites of Zinc where determined in the Crystal Structure of the Btb Domain From the Miz-1/ZBTB17 Transcription Regulator, PDB code: 3m52:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6;

Zinc binding site 1 out of 6 in the Crystal Structure of the Btb Domain From the Miz-1/ZBTB17 Transcription Regulator


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 Btb Domain From the Miz-1/ZBTB17 Transcription Regulator within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn116 b:35.5 occ:1.00 OD2 B:ASP103 2.0 32.1 1.0 ND1 A:HIS6 2.1 33.6 1.0 CG B:ASP103 2.9 29.7 1.0 O A:HOH122 2.9 15.9 1.0 CG A:HIS6 3.0 33.9 1.0 CE1 A:HIS6 3.1 32.7 1.0 ND1 A:HIS9 3.1 33.3 1.0 CB B:ASP103 3.3 28.4 1.0 CB A:HIS6 3.3 34.1 1.0 CA A:HIS6 3.4 34.2 1.0 CE1 A:HIS9 3.8 33.7 1.0 OD1 B:ASP103 3.9 30.2 1.0 O A:HIS6 3.9 33.5 1.0 CZ B:PHE76 4.0 23.6 1.0 C A:HIS6 4.1 33.9 1.0 CG A:HIS9 4.2 32.6 1.0 NE2 A:HIS6 4.2 32.8 1.0 CD2 A:HIS6 4.2 33.4 1.0 CE1 B:PHE76 4.2 23.8 1.0 CB A:HIS9 4.5 31.4 1.0 N A:HIS6 4.6 34.5 1.0 CA B:ASP103 4.8 28.2 1.0

Zinc binding site 2 out of 6 in the Crystal Structure of the Btb Domain From the Miz-1/ZBTB17 Transcription Regulator


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 Btb Domain From the Miz-1/ZBTB17 Transcription Regulator within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn117 b:39.1 occ:1.00 NE2 A:HIS34 2.1 27.9 1.0 O A:HOH138 2.5 16.7 1.0 O A:HOH134 2.6 15.9 1.0 CE1 A:HIS34 3.0 25.1 1.0 CD2 A:HIS34 3.1 24.6 1.0 O A:GLY32 4.1 23.2 1.0 ND1 A:HIS34 4.1 24.0 1.0 CG A:HIS34 4.2 23.1 1.0 CG2 A:VAL29 4.6 20.8 1.0 CG1 A:VAL29 4.8 21.1 1.0

Zinc binding site 3 out of 6 in the Crystal Structure of the Btb Domain From the Miz-1/ZBTB17 Transcription Regulator


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 Btb Domain From the Miz-1/ZBTB17 Transcription Regulator within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn118 b:49.7 occ:0.50 OE1 A:GLU87 2.8 35.9 1.0 OE2 A:GLU87 3.0 35.4 1.0 CD A:GLU87 3.1 34.0 1.0 CG A:GLU87 4.3 33.8 1.0

Zinc binding site 4 out of 6 in the Crystal Structure of the Btb Domain From the Miz-1/ZBTB17 Transcription Regulator


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 Btb Domain From the Miz-1/ZBTB17 Transcription Regulator within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn119 b:44.1 occ:0.50 OD2 A:ASP55 2.0 46.6 1.0 OD2 A:ASP58 2.0 45.9 1.0 CG A:ASP58 2.7 46.3 1.0 OD1 A:ASP58 3.1 46.4 1.0 CG A:ASP55 3.2 47.3 1.0 CB A:ASP55 3.9 46.8 1.0 CB A:ASP58 4.0 46.3 1.0 OD1 A:ASP55 4.1 47.4 1.0 CE A:LYS57 4.2 47.4 1.0 NZ A:LYS57 4.3 47.0 1.0

Zinc binding site 5 out of 6 in the Crystal Structure of the Btb Domain From the Miz-1/ZBTB17 Transcription Regulator


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 Btb Domain From the Miz-1/ZBTB17 Transcription Regulator within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn116 b:31.2 occ:1.00 OXT A:ACT120 2.0 32.4 1.0 OD2 A:ASP103 2.0 31.4 1.0 ND1 B:HIS6 2.1 31.2 1.0 ND1 B:HIS9 2.1 31.1 1.0 C A:ACT120 2.1 31.9 1.0 O A:ACT120 2.4 32.5 1.0 CE1 B:HIS6 2.9 29.8 1.0 CE1 B:HIS9 2.9 30.2 1.0 CG A:ASP103 3.0 32.1 1.0 CH3 A:ACT120 3.1 31.9 1.0 CG B:HIS9 3.2 29.6 1.0 CG B:HIS6 3.2 31.5 1.0 CB A:ASP103 3.5 32.1 1.0 CB B:HIS9 3.6 29.4 1.0 CB B:HIS6 3.7 32.5 1.0 CA B:HIS6 3.9 32.9 1.0 NE2 B:HIS9 4.1 30.2 1.0 NE2 B:HIS6 4.1 29.8 1.0 OD1 A:ASP103 4.1 32.7 1.0 O B:HIS6 4.2 32.6 1.0 CD2 B:HIS9 4.2 29.3 1.0 CD2 B:HIS6 4.2 30.1 1.0 CE1 A:PHE76 4.3 22.7 1.0 N A:ASP103 4.5 32.4 1.0 C B:HIS6 4.5 32.6 1.0 CA A:ASP103 4.6 32.0 1.0

Zinc binding site 6 out of 6 in the Crystal Structure of the Btb Domain From the Miz-1/ZBTB17 Transcription Regulator


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Crystal Structure of the Btb Domain From the Miz-1/ZBTB17 Transcription Regulator within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn117 b:49.0 occ:1.00 NE2 B:HIS34 2.1 32.1 1.0 CE1 B:HIS34 3.1 27.9 1.0 CD2 B:HIS34 3.1 26.5 1.0 O B:GLY32 3.8 21.2 1.0 ND1 B:HIS34 4.2 26.2 1.0 CG B:HIS34 4.2 24.8 1.0 C B:GLY32 4.9 21.1 1.0

P.J.Stogios, J.A.Cuesta-Seijo, L.Chen, N.C.Pomroy, G.G.Prive. Insights Into Strand Exchange in Btb Domain Dimers From the Crystal Structures of Fazf and MIZ1. J.Mol.Biol. V. 400 983 2010.
ISSN: ISSN 0022-2836
PubMed: 20493880
DOI: 10.1016/J.JMB.2010.05.028