Zinc in PDB 6za3: Structure of the Transcriptional Repressor ATU1419 (Vanr) From Agrobacterium Fabrum in Complex A Palindromic Dna (C2221 Space Group)

The structure of Structure of the Transcriptional Repressor ATU1419 (Vanr) From Agrobacterium Fabrum in Complex A Palindromic Dna (C2221 Space Group), PDB code: 6za3 was solved by S.Morera, A.Vigouroux, P.Legrand, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	35.07 / 2.05
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	62.446, 112.402, 179.552, 90.00, 90.00, 90.00
R / Rfree (%)	19.3 / 22.8

The structure of Structure of the Transcriptional Repressor ATU1419 (Vanr) From Agrobacterium Fabrum in Complex A Palindromic Dna (C2221 Space Group) also contains other interesting chemical elements:

Chlorine

(Cl)

2 atoms

The binding sites of Zinc atom in the Structure of the Transcriptional Repressor ATU1419 (Vanr) From Agrobacterium Fabrum in Complex A Palindromic Dna (C2221 Space Group) (pdb code 6za3). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Structure of the Transcriptional Repressor ATU1419 (Vanr) From Agrobacterium Fabrum in Complex A Palindromic Dna (C2221 Space Group), PDB code: 6za3:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Structure of the Transcriptional Repressor ATU1419 (Vanr) From Agrobacterium Fabrum in Complex A Palindromic Dna (C2221 Space Group)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of the Transcriptional Repressor ATU1419 (Vanr) From Agrobacterium Fabrum in Complex A Palindromic Dna (C2221 Space Group) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn301 b:43.3 occ:0.70 NE2 A:HIS214 2.1 46.6 1.0 NE2 A:HIS141 2.1 36.8 1.0 NE2 A:HIS192 2.1 39.5 1.0 OD1 A:ASN137 2.3 35.2 1.0 O A:HOH440 2.7 48.6 1.0 CE1 A:HIS214 3.0 46.6 1.0 CE1 A:HIS192 3.0 39.6 1.0 CE1 A:HIS141 3.1 36.2 1.0 CD2 A:HIS141 3.1 37.3 1.0 CD2 A:HIS214 3.1 46.1 1.0 CD2 A:HIS192 3.2 39.0 1.0 CG A:ASN137 3.4 45.6 1.0 ND2 A:ASN137 3.8 35.0 1.0 O A:HOH432 4.1 48.7 1.0 ND1 A:HIS214 4.2 46.6 1.0 ND1 A:HIS192 4.2 40.3 1.0 CG A:HIS214 4.2 44.5 1.0 ND1 A:HIS141 4.2 36.7 1.0 CG A:HIS141 4.2 35.6 1.0 CG A:HIS192 4.3 37.9 1.0 OH A:TYR133 4.5 43.9 1.0 CD1 A:PHE140 4.5 31.1 1.0 CB A:ASN137 4.7 34.9 1.0 CE1 A:PHE140 4.9 31.1 1.0 O A:ASN137 5.0 36.0 1.0

Zinc binding site 2 out of 2 in the Structure of the Transcriptional Repressor ATU1419 (Vanr) From Agrobacterium Fabrum in Complex A Palindromic Dna (C2221 Space Group)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of the Transcriptional Repressor ATU1419 (Vanr) From Agrobacterium Fabrum in Complex A Palindromic Dna (C2221 Space Group) within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn301 b:46.2 occ:0.70 NE2 B:HIS141 2.1 34.5 1.0 NE2 B:HIS192 2.1 38.5 1.0 NE2 B:HIS214 2.1 46.8 1.0 OD1 B:ASN137 2.3 37.6 1.0 O B:HOH437 2.6 42.2 1.0 CE1 B:HIS192 3.0 39.2 1.0 CE1 B:HIS214 3.0 46.9 1.0 CE1 B:HIS141 3.0 33.7 1.0 CD2 B:HIS141 3.1 35.1 1.0 CD2 B:HIS192 3.1 38.0 1.0 CD2 B:HIS214 3.2 46.4 1.0 CG B:ASN137 3.4 43.4 1.0 ND2 B:ASN137 3.8 39.2 1.0 O B:HOH449 3.9 61.2 1.0 ND1 B:HIS192 4.2 40.5 1.0 ND1 B:HIS141 4.2 35.1 1.0 ND1 B:HIS214 4.2 47.6 1.0 CG B:HIS141 4.2 34.7 1.0 CG B:HIS192 4.2 37.6 1.0 CG B:HIS214 4.2 45.0 1.0 CD2 B:PHE140 4.5 31.2 1.0 OH B:TYR133 4.5 44.9 1.0 CB B:ASN137 4.7 37.0 1.0 CE2 B:PHE140 4.9 33.7 1.0

A.Vigouroux, T.Meyer, A.Naretto, P.Legrand, M.Aumont-Nicaise, A.Di Cicco, S.Renoud, J.Dore, D.Levy, L.Vial, C.Lavire, S.Morera. Characterization of the First Tetrameric Transcription Factor of the Gntr Superfamily with Allosteric Regulation From the Bacterial Pathogen Agrobacterium Fabrum Nucleic Acids Res. 2020.
ISSN: ESSN 1362-4962