Zinc in PDB 2eul: Structure of the Transcription Factor GFH1.

The structure of Structure of the Transcription Factor GFH1., PDB code: 2eul was solved by J.Symersky, A.Perederina, M.N.Vassylyeva, V.Svetlov, I.Artsimovitch, D.G.Vassylyev, Riken Structural Genomics/Proteomics Initiative (Rsgi), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	30.00 / 2.40
Space group	P 43
Cell size a, b, c (Å), α, β, γ (°)	59.291, 59.291, 218.876, 90.00, 90.00, 90.00
R / Rfree (%)	20.6 / 24.5

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 25;

Binding sites:

The binding sites of Zinc atom in the Structure of the Transcription Factor GFH1. (pdb code 2eul). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 25 binding sites of Zinc where determined in the Structure of the Transcription Factor GFH1., PDB code: 2eul:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Zinc binding site 1 out of 25 in the Structure of the Transcription Factor GFH1.


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 Transcription Factor GFH1. within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn401 b:40.4 occ:1.00 OE1 A:GLU49 2.0 48.4 1.0 O A:HOH426 2.5 31.0 1.0 O A:HOH449 2.6 18.4 1.0 CD A:GLU49 3.1 50.5 1.0 OE2 A:GLU49 3.6 50.3 1.0 CG A:GLU49 4.4 50.9 1.0 CB A:GLU49 4.7 50.0 1.0 CG A:LYS52 5.0 53.7 1.0

Zinc binding site 2 out of 25 in the Structure of the Transcription Factor GFH1.


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 Transcription Factor GFH1. within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn402 b:49.2 occ:1.00 ZN A:ZN416 2.4 68.9 1.0 OD1 B:ASP67 2.6 31.0 1.0 OE2 A:GLU66 3.1 39.0 1.0 OE1 A:GLU66 3.3 38.3 1.0 OD1 A:ASP63 3.4 48.0 1.0 CG B:ASP67 3.5 32.3 1.0 CD A:GLU66 3.5 37.9 1.0 CB B:ASP67 3.9 33.2 1.0 CG2 A:ILE62 4.5 38.0 1.0 OD2 B:ASP67 4.5 29.5 1.0 CG A:ASP63 4.6 46.7 1.0 ZN A:ZN417 4.8 95.3 1.0 CA B:ASP67 4.9 34.3 1.0

Zinc binding site 3 out of 25 in the Structure of the Transcription Factor GFH1.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Structure of the Transcription Factor GFH1. within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn403 b:75.3 occ:1.00 OE1 A:GLU109 2.1 69.3 1.0 OE2 A:GLU109 2.7 70.5 1.0 CD A:GLU109 2.7 69.8 1.0 O A:HOH463 2.7 22.8 1.0 CG A:GLU109 4.2 68.0 1.0 CB A:VAL105 4.7 62.2 1.0 CG1 A:VAL105 4.7 61.2 1.0 CB A:GLU109 4.8 67.9 1.0 O A:HOH488 4.9 47.1 1.0

Zinc binding site 4 out of 25 in the Structure of the Transcription Factor GFH1.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Structure of the Transcription Factor GFH1. within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn404 b:48.5 occ:1.00 OE2 A:GLU24 2.0 45.7 1.0 O A:HOH434 2.5 29.9 1.0 OE2 A:GLU20 2.6 50.0 1.0 OE1 A:GLU20 2.8 50.2 1.0 CD A:GLU24 2.9 43.6 1.0 CD A:GLU20 3.0 48.0 1.0 CB B:ALA2 3.5 83.8 1.0 CG A:GLU24 3.6 40.2 1.0 CD C:ARG21 3.9 49.1 1.0 OE1 A:GLU24 3.9 44.3 1.0 CG C:ARG21 4.5 45.4 1.0 CG A:GLU20 4.5 44.1 1.0 O A:GLU20 4.6 37.1 1.0 O B:HOH443 4.8 30.8 1.0 O A:HOH430 4.8 27.4 1.0 OE1 A:GLN27 4.9 35.4 1.0 O C:HOH453 5.0 42.0 1.0 CB A:GLU24 5.0 38.4 1.0

Zinc binding site 5 out of 25 in the Structure of the Transcription Factor GFH1.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Structure of the Transcription Factor GFH1. within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn413 b:38.2 occ:1.00 OE2 B:GLU66 2.0 32.3 1.0 OD1 A:ASP67 2.3 25.0 1.0 O A:HOH425 2.7 2.7 1.0 CD B:GLU66 2.7 33.5 1.0 OE1 B:GLU66 2.9 32.8 1.0 ZN B:ZN405 3.1 49.8 1.0 CG A:ASP67 3.2 25.3 1.0 CB A:ASP67 3.4 27.9 1.0 NH2 B:ARG23 3.7 26.9 1.0 NH2 A:ARG71 3.9 39.0 1.0 CA A:ASP67 4.1 33.0 1.0 CG B:GLU66 4.1 34.3 1.0 CG2 B:ILE62 4.2 43.7 1.0 OD2 A:ASP67 4.3 19.5 1.0 NE B:ARG23 4.4 29.1 1.0 CZ B:ARG23 4.5 29.2 1.0 OD1 B:ASP63 4.8 49.7 1.0 CZ A:ARG71 4.9 39.3 1.0

Zinc binding site 6 out of 25 in the Structure of the Transcription Factor GFH1.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Structure of the Transcription Factor GFH1. within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn416 b:68.9 occ:1.00 OD1 B:ASP67 2.1 31.0 1.0 ZN A:ZN402 2.4 49.2 1.0 OE2 A:GLU66 2.6 39.0 1.0 NH2 B:ARG71 3.2 33.8 1.0 CG B:ASP67 3.3 32.3 1.0 NH2 A:ARG23 3.5 32.3 1.0 NE A:ARG23 3.5 29.6 1.0 CD A:GLU66 3.7 37.9 1.0 OD2 B:ASP67 3.9 29.5 1.0 CZ A:ARG23 3.9 32.9 1.0 OE1 A:GLU66 4.0 38.3 1.0 CG2 A:ILE62 4.1 38.0 1.0 CZ B:ARG71 4.3 35.6 1.0 CB B:ASP67 4.4 33.2 1.0 CD A:ARG23 4.6 28.4 1.0 CG A:ARG23 4.7 31.4 1.0 CE B:MET1 4.8 84.3 1.0 NE B:ARG71 4.9 36.1 1.0 CG A:GLU66 5.0 36.9 1.0

Zinc binding site 7 out of 25 in the Structure of the Transcription Factor GFH1.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Structure of the Transcription Factor GFH1. within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn417 b:95.3 occ:1.00 OD1 B:ASP63 2.5 49.7 1.0 OE1 B:GLU66 2.9 32.8 1.0 OE1 A:GLU66 3.1 38.3 1.0 OD1 A:ASP63 3.4 48.0 1.0 O A:ASP63 3.4 35.6 1.0 CB A:GLU66 3.5 35.9 1.0 CG B:ASP63 3.5 46.8 1.0 CA A:ASP63 3.5 39.3 1.0 CB B:GLU66 3.7 35.4 1.0 O B:ASP63 3.7 40.6 1.0 CB A:ASP63 3.8 42.2 1.0 CG A:ASP63 3.8 46.7 1.0 CB B:ASP63 3.8 43.2 1.0 CA B:ASP63 3.9 42.1 1.0 CD A:GLU66 3.9 37.9 1.0 C A:ASP63 3.9 37.9 1.0 CD B:GLU66 4.0 33.5 1.0 C B:ASP63 4.2 41.2 1.0 CG A:GLU66 4.3 36.9 1.0 CG B:GLU66 4.3 34.3 1.0 N A:ASP67 4.6 33.9 1.0 OD2 B:ASP63 4.6 48.1 1.0 N B:ASP67 4.6 34.4 1.0 CA A:GLU66 4.7 35.6 1.0 OD2 A:ASP63 4.8 46.8 1.0 OE2 A:GLU66 4.8 39.0 1.0 N A:ASP63 4.8 38.9 1.0 C A:GLU66 4.8 34.6 1.0 ZN A:ZN402 4.8 49.2 1.0 CA B:GLU66 4.8 34.4 1.0 ZN B:ZN414 4.8 54.5 1.0 O A:ILE62 4.9 38.0 1.0 C B:GLU66 4.9 34.4 1.0

Zinc binding site 8 out of 25 in the Structure of the Transcription Factor GFH1.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of Structure of the Transcription Factor GFH1. within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn419 b:72.0 occ:1.00 OD2 A:ASP136 2.3 39.9 1.0 O A:HOH483 2.6 32.4 1.0 ND1 A:HIS132 3.1 44.0 1.0 CG A:ASP136 3.3 39.1 1.0 OD1 A:ASP136 3.8 38.2 1.0 CE1 A:HIS132 3.8 43.7 1.0 CG A:HIS132 4.1 43.8 1.0 CA A:HIS132 4.1 45.1 1.0 O A:GLY131 4.2 47.6 1.0 CB A:HIS132 4.3 44.4 1.0 CB A:ASP136 4.4 37.0 1.0 N A:ARG133 4.8 44.2 1.0 C A:GLY131 4.9 46.9 1.0 N A:HIS132 4.9 46.1 1.0 CG A:ARG133 4.9 52.5 1.0 O A:HOH491 5.0 40.7 1.0 NE2 A:HIS132 5.0 42.8 1.0

Zinc binding site 9 out of 25 in the Structure of the Transcription Factor GFH1.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 9 of Structure of the Transcription Factor GFH1. within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn424 b:76.1 occ:1.00 CG A:PRO143 2.3 86.2 1.0 CB A:PRO143 2.6 86.1 1.0 CA A:PRO143 3.0 86.3 1.0 O A:HOH446 3.3 48.8 1.0 CD A:PRO143 3.4 85.3 1.0 N A:PRO143 3.5 84.5 1.0 C A:THR142 4.4 81.9 1.0 C A:PRO143 4.4 87.9 1.0 O A:THR142 4.8 81.4 1.0

Zinc binding site 10 out of 25 in the Structure of the Transcription Factor GFH1.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 10 of Structure of the Transcription Factor GFH1. within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn405 b:49.8 occ:1.00 ZN B:ZN414 2.9 54.5 1.0 O B:HOH524 3.0 45.1 1.0 ZN A:ZN413 3.1 38.2 1.0 OD2 B:ASP63 3.3 48.1 1.0 OD1 B:ASP63 3.5 49.7 1.0 CG B:ASP63 3.7 46.8 1.0 O A:HOH425 4.1 2.7 1.0 OE1 B:GLU66 4.2 32.8 1.0 O B:HOH459 4.4 21.9 1.0 CG2 B:ILE62 4.5 43.7 1.0 OE2 B:GLU66 4.7 32.3 1.0 CD B:GLU66 4.7 33.5 1.0

J.Symersky, A.Perederina, M.N.Vassylyeva, V.Svetlov, I.Artsimovitch, D.G.Vassylyev. Regulation Through the Rna Polymerase Secondary Channel: Structural and Functional Variability of the Coiled-Coil Transcription Factors. J.Biol.Chem. V. 281 1309 2006.
ISSN: ISSN 0021-9258
PubMed: 16298991
DOI: 10.1074/JBC.C500405200