Zinc in PDB 4hn6: Gr Dna Binding Domain R460D/D462R - Tslp Ngre Complex

The structure of Gr Dna Binding Domain R460D/D462R - Tslp Ngre Complex, PDB code: 4hn6 was solved by W.H.Hudson, C.E.Youn, E.A.Ortlund, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	44.48 / 2.55
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	38.740, 87.870, 103.150, 90.00, 90.00, 90.00
R / Rfree (%)	19.5 / 24.8

The binding sites of Zinc atom in the Gr Dna Binding Domain R460D/D462R - Tslp Ngre Complex (pdb code 4hn6). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Gr Dna Binding Domain R460D/D462R - Tslp Ngre Complex, PDB code: 4hn6:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the Gr Dna Binding Domain R460D/D462R - Tslp Ngre Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Gr Dna Binding Domain R460D/D462R - Tslp Ngre Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn601 b:35.0 occ:1.00 SG A:CYS424 2.3 30.7 1.0 SG A:CYS441 2.3 33.9 1.0 SG A:CYS421 2.3 30.6 1.0 SG A:CYS438 2.4 34.1 1.0 CB A:CYS441 3.2 33.6 1.0 CB A:CYS421 3.3 35.2 1.0 CB A:CYS424 3.3 30.1 1.0 CB A:CYS438 3.5 31.2 1.0 N A:CYS424 3.7 33.3 1.0 N A:CYS438 3.9 36.7 1.0 CA A:CYS424 4.0 33.3 1.0 NH1 A:ARG470 4.2 34.4 1.0 CA A:CYS438 4.3 35.4 1.0 N A:CYS441 4.3 29.4 1.0 CA A:CYS441 4.3 29.1 1.0 OG A:SER440 4.6 31.9 1.0 C A:CYS424 4.6 37.9 1.0 CB A:ASP426 4.7 35.8 1.0 CB A:VAL423 4.7 33.9 1.0 CA A:CYS421 4.8 37.0 1.0 N A:SER425 4.8 39.2 1.0 C A:VAL423 4.8 34.9 1.0 C A:CYS438 4.8 37.3 1.0 N A:ASP426 4.9 40.2 1.0 CG1 A:VAL423 4.9 30.3 1.0 NH2 A:ARG477 4.9 29.5 1.0 O A:CYS438 5.0 37.6 1.0 CD A:ARG470 5.0 30.3 1.0

Zinc binding site 2 out of 4 in the Gr Dna Binding Domain R460D/D462R - Tslp Ngre Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Gr Dna Binding Domain R460D/D462R - Tslp Ngre Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn602 b:20.1 occ:1.00 SG A:CYS473 2.2 24.1 1.0 SG A:CYS457 2.3 17.3 1.0 SG A:CYS463 2.3 25.1 1.0 SG A:CYS476 2.4 18.5 1.0 CB A:CYS457 3.1 19.7 1.0 CB A:CYS463 3.1 20.1 1.0 CB A:CYS473 3.3 24.1 1.0 CB A:CYS476 3.6 23.6 1.0 CA A:CYS457 3.9 20.9 1.0 N A:CYS463 4.0 23.6 1.0 O A:HOH702 4.0 22.5 1.0 CA A:CYS463 4.2 20.6 1.0 N A:CYS476 4.3 25.5 1.0 O A:HOH705 4.4 18.0 1.0 CA A:ASN461 4.5 23.0 1.0 N A:ASN461 4.5 22.3 1.0 CA A:CYS476 4.5 24.0 1.0 N A:ALA458 4.6 24.0 1.0 C A:CYS457 4.7 20.1 1.0 N A:ARG462 4.7 27.0 1.0 CA A:CYS473 4.7 28.1 1.0 O A:HOH708 4.7 26.3 1.0 C A:ASN461 4.8 26.4 1.0 N A:GLY459 4.8 21.8 1.0 CB A:ALA475 5.0 21.3 1.0

Zinc binding site 3 out of 4 in the Gr Dna Binding Domain R460D/D462R - Tslp Ngre Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Gr Dna Binding Domain R460D/D462R - Tslp Ngre Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn601 b:23.3 occ:1.00 SG B:CYS421 2.3 22.7 1.0 SG B:CYS438 2.3 22.9 1.0 SG B:CYS424 2.4 22.5 1.0 SG B:CYS441 2.4 25.6 1.0 CB B:CYS441 3.2 21.1 1.0 CB B:CYS421 3.3 24.8 1.0 CB B:CYS424 3.5 22.7 1.0 CB B:CYS438 3.5 25.6 1.0 N B:CYS424 3.8 22.7 1.0 N B:CYS438 3.9 25.7 1.0 CA B:CYS424 4.1 24.3 1.0 CA B:CYS438 4.3 25.3 1.0 N B:CYS441 4.3 19.9 1.0 CA B:CYS441 4.3 22.4 1.0 CB B:VAL423 4.5 21.6 1.0 NH2 B:ARG470 4.6 26.3 1.0 CB B:ASP426 4.7 29.2 1.0 C B:VAL423 4.7 19.3 1.0 NH2 B:ARG477 4.7 20.6 1.0 N B:SER425 4.8 28.3 1.0 CA B:CYS421 4.8 25.3 1.0 C B:CYS424 4.8 26.6 1.0 OG B:SER440 4.8 24.7 1.0 NE B:ARG470 4.8 31.3 1.0 CG1 B:VAL423 4.9 17.4 1.0 O B:CYS438 4.9 25.2 1.0 CA B:VAL423 4.9 22.2 1.0 N B:VAL423 4.9 25.2 1.0 C B:CYS438 4.9 25.8 1.0 N B:ASP426 4.9 28.1 1.0

Zinc binding site 4 out of 4 in the Gr Dna Binding Domain R460D/D462R - Tslp Ngre Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Gr Dna Binding Domain R460D/D462R - Tslp Ngre Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn602 b:18.4 occ:1.00 SG B:CYS457 2.1 20.8 1.0 SG B:CYS463 2.3 23.3 1.0 SG B:CYS473 2.3 22.1 1.0 SG B:CYS476 2.3 18.1 1.0 CB B:CYS463 3.0 19.2 1.0 CB B:CYS457 3.3 22.0 1.0 CB B:CYS473 3.3 18.2 1.0 CB B:CYS476 3.5 19.1 1.0 O B:HOH715 3.9 22.1 1.0 N B:CYS463 4.0 26.4 1.0 O B:ASP460 4.0 43.0 1.0 CA B:CYS457 4.0 22.8 1.0 CA B:CYS463 4.1 23.1 1.0 N B:CYS476 4.2 19.1 1.0 CA B:CYS476 4.5 17.7 1.0 CA B:ASN461 4.7 27.8 1.0 O B:HOH702 4.7 16.6 1.0 N B:ARG462 4.7 31.4 1.0 CA B:CYS473 4.7 21.3 1.0 N B:ALA458 4.7 26.4 1.0 C B:CYS457 4.8 28.4 1.0 N B:GLY459 4.9 23.4 1.0 CB B:ALA475 4.9 16.6 1.0 C B:ASP460 4.9 36.2 1.0 C B:ASN461 4.9 27.3 1.0

W.H.Hudson, C.Youn, E.A.Ortlund. The Structural Basis of Direct Glucocorticoid-Mediated Transrepression. Nat.Struct.Mol.Biol. V. 20 53 2013.
ISSN: ISSN 1545-9993
PubMed: 23222642
DOI: 10.1038/NSMB.2456