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Zinc in PDB 2a66: Human Liver Receptor Homologue Dna-Binding Domain (Hlrh-1 Dbd) in Complex with Dsdna From the HCYP7A1 Promoter

Protein crystallography data

The structure of Human Liver Receptor Homologue Dna-Binding Domain (Hlrh-1 Dbd) in Complex with Dsdna From the HCYP7A1 Promoter, PDB code: 2a66 was solved by I.H.Solomon, J.M.Hager, R.Safi, D.P.Mcdonnell, M.R.Redinbo, E.A.Ortlund, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 22.24 / 2.20
Space group P 43
Cell size a, b, c (Å), α, β, γ (°) 40.770, 40.770, 104.850, 90.00, 90.00, 90.00
R / Rfree (%) 19.6 / 22.6

Zinc Binding Sites:

The binding sites of Zinc atom in the Human Liver Receptor Homologue Dna-Binding Domain (Hlrh-1 Dbd) in Complex with Dsdna From the HCYP7A1 Promoter (pdb code 2a66). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Human Liver Receptor Homologue Dna-Binding Domain (Hlrh-1 Dbd) in Complex with Dsdna From the HCYP7A1 Promoter, PDB code: 2a66:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 2a66

Go back to Zinc Binding Sites List in 2a66
Zinc binding site 1 out of 2 in the Human Liver Receptor Homologue Dna-Binding Domain (Hlrh-1 Dbd) in Complex with Dsdna From the HCYP7A1 Promoter


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Human Liver Receptor Homologue Dna-Binding Domain (Hlrh-1 Dbd) in Complex with Dsdna From the HCYP7A1 Promoter within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn401

b:23.2
occ:1.00
SG A:CYS86 2.3 22.1 1.0
SG A:CYS103 2.4 25.0 1.0
SG A:CYS89 2.4 23.2 1.0
SG A:CYS106 2.5 24.8 1.0
CB A:CYS86 3.1 23.7 1.0
CB A:CYS106 3.3 19.4 1.0
CB A:CYS103 3.4 22.0 1.0
CB A:CYS89 3.5 25.2 1.0
N A:CYS89 3.7 27.0 1.0
N A:CYS103 4.0 21.8 1.0
CA A:CYS89 4.1 25.8 1.0
N A:CYS106 4.3 20.9 1.0
OG A:SER105 4.3 23.5 1.0
CA A:CYS103 4.3 21.6 1.0
CB A:VAL88 4.3 27.6 1.0
CA A:CYS106 4.3 22.2 1.0
NH1 A:ARG135 4.5 17.8 1.0
CB A:ASP91 4.5 26.3 1.0
CA A:CYS86 4.6 26.1 1.0
C A:VAL88 4.7 28.3 1.0
N A:GLY90 4.7 25.5 1.0
N A:ASP91 4.7 26.8 1.0
C A:CYS89 4.7 27.0 1.0
CG1 A:VAL88 4.9 26.8 1.0
CA A:VAL88 4.9 27.0 1.0
C A:CYS103 4.9 22.0 1.0
O A:CYS103 4.9 20.9 1.0
N A:VAL88 5.0 27.0 1.0

Zinc binding site 2 out of 2 in 2a66

Go back to Zinc Binding Sites List in 2a66
Zinc binding site 2 out of 2 in the Human Liver Receptor Homologue Dna-Binding Domain (Hlrh-1 Dbd) in Complex with Dsdna From the HCYP7A1 Promoter


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Human Liver Receptor Homologue Dna-Binding Domain (Hlrh-1 Dbd) in Complex with Dsdna From the HCYP7A1 Promoter within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn402

b:57.8
occ:1.00
SG A:CYS141 2.5 41.2 1.0
SG A:CYS138 2.6 37.6 1.0
SG A:CYS122 2.7 51.2 1.0
SG A:CYS128 2.7 55.2 1.0
CB A:CYS141 3.1 32.7 1.0
CB A:CYS122 3.2 52.8 1.0
CB A:CYS128 3.3 55.4 1.0
OXT A:ACT801 3.4 60.5 1.0
CB A:CYS138 3.6 33.4 1.0
N A:CYS128 3.9 57.1 1.0
N A:CYS141 3.9 29.6 1.0
CA A:CYS141 4.0 30.8 1.0
CA A:GLN126 4.2 64.4 1.0
CA A:CYS122 4.2 54.2 1.0
CA A:CYS128 4.2 54.5 1.0
N A:ASN127 4.3 63.4 1.0
CD2 A:TYR140 4.4 41.2 1.0
N A:GLN126 4.4 65.1 1.0
C A:ACT801 4.5 61.0 1.0
C A:GLN126 4.6 63.9 1.0
CB A:GLU124 4.8 65.4 0.3
CB A:TYR140 4.8 37.1 1.0
C A:TYR140 5.0 30.6 1.0

Reference:

I.H.Solomon, J.M.Hager, R.Safi, D.P.Mcdonnell, M.R.Redinbo, E.A.Ortlund. Crystal Structure of the Human Lrh-1 Dbd-Dna Complex Reveals Ftz-F1 Domain Positioning Is Required For Receptor Activity. J.Mol.Biol. V. 354 1091 2005.
ISSN: ISSN 0022-2836
PubMed: 16289203
DOI: 10.1016/J.JMB.2005.10.009
Page generated: Wed Dec 16 03:16:55 2020

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