Zinc in PDB 3g6r: Gr Dna Binding Domain:FKBP5 Complex-52, 18BP

The structure of Gr Dna Binding Domain:FKBP5 Complex-52, 18BP, PDB code: 3g6r was solved by M.A.Pufall, K.R.Yamamoto, S.H.Meijsing, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.20 / 2.30
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	39.688, 101.310, 112.550, 90.00, 90.00, 90.00
R / Rfree (%)	18.7 / 23.8

The binding sites of Zinc atom in the Gr Dna Binding Domain:FKBP5 Complex-52, 18BP (pdb code 3g6r). 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:FKBP5 Complex-52, 18BP, PDB code: 3g6r:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the Gr Dna Binding Domain:FKBP5 Complex-52, 18BP


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:FKBP5 Complex-52, 18BP within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1514 b:64.8 occ:1.00 SG B:CYS460 2.3 41.8 0.9 SG B:CYS443 2.4 49.9 1.0 SG B:CYS457 2.4 47.9 1.0 SG B:CYS440 2.5 49.5 1.0 CB B:CYS460 3.1 40.1 1.0 CB B:CYS440 3.4 58.7 1.0 CB B:CYS443 3.5 50.7 1.0 CB B:CYS457 3.6 57.0 1.0 N B:CYS443 3.7 52.3 0.9 N B:CYS457 4.0 44.1 1.0 CA B:CYS443 4.2 48.7 1.0 N B:CYS460 4.2 39.7 1.0 CA B:CYS460 4.2 36.4 1.0 CA B:CYS457 4.3 48.8 1.0 CB B:VAL442 4.4 52.1 1.0 NH1 B:ARG489 4.4 54.8 1.0 OG B:SER459 4.6 47.4 1.0 CB B:ASP445 4.7 67.3 1.0 C B:VAL442 4.7 51.3 1.0 NH2 B:ARG496 4.7 44.7 1.0 C B:CYS443 4.8 54.5 1.0 CD B:ARG489 4.9 45.7 1.0 N B:SER444 4.9 50.8 1.0 CA B:CYS440 4.9 55.2 1.0 C B:CYS457 4.9 44.2 1.0 CG1 B:VAL442 4.9 45.7 1.0 O B:CYS457 4.9 45.9 1.0 CA B:VAL442 4.9 54.5 1.0 N B:VAL442 4.9 52.6 1.0

Zinc binding site 2 out of 4 in the Gr Dna Binding Domain:FKBP5 Complex-52, 18BP


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:FKBP5 Complex-52, 18BP within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1515 b:54.6 occ:0.96 SG B:CYS482 2.3 38.7 1.0 SG B:CYS476 2.4 37.0 1.0 SG B:CYS492 2.4 39.9 1.0 SG B:CYS495 2.5 39.9 1.0 CB B:CYS482 3.2 32.0 1.0 CB B:CYS476 3.3 24.9 1.0 CB B:CYS492 3.4 27.8 1.0 CB B:CYS495 3.5 26.1 1.0 O B:HOH2 3.6 36.6 1.0 CA B:CYS476 3.9 28.9 1.0 N B:CYS482 4.0 35.1 1.0 N B:CYS495 4.2 32.1 1.0 CA B:CYS482 4.2 40.3 1.0 O B:HOH3 4.3 36.0 1.0 CA B:CYS495 4.4 35.0 1.0 N B:ALA477 4.5 39.1 1.0 CA B:ASN480 4.6 36.3 1.0 N B:ASN480 4.6 34.5 1.0 O B:HOH49 4.7 39.6 1.0 N B:ASP481 4.7 33.5 1.0 C B:CYS476 4.7 37.3 1.0 CA B:CYS492 4.8 30.7 1.0 N B:GLY478 4.8 36.5 1.0 C B:ASN480 4.9 43.0 1.0

Zinc binding site 3 out of 4 in the Gr Dna Binding Domain:FKBP5 Complex-52, 18BP


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:FKBP5 Complex-52, 18BP within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1512 b:58.3 occ:0.97 SG A:CYS460 2.4 39.9 1.0 SG A:CYS457 2.4 41.7 1.0 SG A:CYS443 2.4 46.9 1.0 SG A:CYS440 2.5 41.9 1.0 CB A:CYS460 3.2 33.5 1.0 CB A:CYS440 3.3 43.0 1.0 CB A:CYS443 3.4 44.2 1.0 CB A:CYS457 3.6 45.8 0.8 N A:CYS457 3.7 32.4 1.0 N A:CYS443 3.8 35.6 1.0 N A:CYS460 4.1 33.3 1.0 CA A:CYS443 4.2 39.9 1.0 CA A:CYS460 4.2 30.1 1.0 CA A:CYS457 4.2 35.9 1.0 OG A:SER459 4.3 38.6 1.0 NH1 A:ARG489 4.4 40.3 1.0 CB A:ASP445 4.5 49.5 1.0 CB A:VAL442 4.6 43.0 1.0 C A:CYS443 4.8 45.0 1.0 C A:VAL442 4.8 40.2 1.0 CA A:CYS440 4.8 42.5 1.0 C A:THR456 4.8 49.1 1.0 C A:CYS457 4.8 40.0 1.0 O A:CYS457 4.8 38.7 1.0 N A:ASP445 4.9 44.0 1.0 N A:SER444 4.9 45.0 1.0 CB A:THR456 4.9 43.5 1.0 CA A:THR456 5.0 47.0 1.0 NH2 A:ARG496 5.0 41.0 1.0

Zinc binding site 4 out of 4 in the Gr Dna Binding Domain:FKBP5 Complex-52, 18BP


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:FKBP5 Complex-52, 18BP within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1513 b:52.0 occ:0.93 SG A:CYS492 2.3 33.5 1.0 SG A:CYS476 2.3 36.9 1.0 SG A:CYS482 2.4 37.5 1.0 SG A:CYS495 2.5 34.3 1.0 CB A:CYS482 3.2 26.7 1.0 CB A:CYS492 3.3 27.0 1.0 CB A:CYS495 3.3 31.9 1.0 CB A:CYS476 3.4 29.2 1.0 O A:HOH1 3.7 36.2 1.0 N A:CYS482 3.9 33.8 1.0 CA A:CYS476 4.0 28.9 1.0 N A:CYS495 4.1 35.3 1.0 CA A:CYS482 4.2 35.4 1.0 CA A:CYS495 4.3 33.3 1.0 O A:HOH48 4.3 33.4 1.0 CA A:ASN480 4.3 41.6 1.0 N A:ASN480 4.5 45.4 1.0 N A:ASP481 4.6 35.7 1.0 O A:HOH14 4.6 45.8 1.0 N A:ALA477 4.6 44.6 1.0 O B:HOH49 4.7 39.6 1.0 CA A:CYS492 4.7 30.6 1.0 C A:ASN480 4.7 40.8 1.0 C A:CYS476 4.8 36.7 1.0 N A:GLY478 4.9 36.8 0.9 CB A:ALA494 4.9 30.4 1.0

S.H.Meijsing, M.A.Pufall, A.Y.So, D.L.Bates, L.Chen, K.R.Yamamoto. Dna Binding Site Sequence Directs Glucocorticoid Receptor Structure and Activity. Science V. 324 407 2009.
ISSN: ISSN 0036-8075
PubMed: 19372434
DOI: 10.1126/SCIENCE.1164265