Zinc in PDB 3m1n: Crystal Structure of Human Sonic Hedgehog N-Terminal Domain

The structure of Crystal Structure of Human Sonic Hedgehog N-Terminal Domain, PDB code: 3m1n was solved by P.A.Boriack-Sjodin, R.B.Pepinsky, E.A.Garber, L.F.Silvian, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	18.73 / 1.85
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	45.741, 51.788, 69.932, 90.00, 96.53, 90.00
R / Rfree (%)	20.3 / 26

The binding sites of Zinc atom in the Crystal Structure of Human Sonic Hedgehog N-Terminal Domain (pdb code 3m1n). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Crystal Structure of Human Sonic Hedgehog N-Terminal Domain, PDB code: 3m1n:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of Human Sonic Hedgehog N-Terminal Domain


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of Human Sonic Hedgehog N-Terminal Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn200 b:13.7 occ:1.00 OD1 A:ASP147 1.9 7.2 1.0 NE2 A:HIS140 2.1 13.5 1.0 ND1 A:HIS182 2.1 9.1 1.0 CG A:ASP147 2.7 13.8 1.0 OD2 A:ASP147 2.9 9.4 1.0 CE1 A:HIS140 3.0 14.2 1.0 CE1 A:HIS182 3.1 9.8 1.0 CD2 A:HIS140 3.1 13.5 1.0 CG A:HIS182 3.1 8.7 1.0 CB A:HIS182 3.4 9.4 1.0 OE1 A:GLU176 3.7 16.8 1.0 CB A:ASP147 4.1 10.9 1.0 ND1 A:HIS140 4.1 9.9 1.0 CA A:HIS182 4.1 9.4 1.0 CE1 A:HIS134 4.2 30.4 1.0 CG A:HIS140 4.2 11.7 1.0 NE2 A:HIS182 4.2 11.7 1.0 CD2 A:HIS182 4.3 10.9 1.0 O A:VAL146 4.4 10.8 1.0 N A:ASP147 4.4 11.7 1.0 ND1 A:HIS134 4.5 29.5 1.0 CA A:ASP147 4.5 11.0 1.0 C A:VAL146 4.5 11.2 1.0 CE1 A:HIS180 4.6 10.4 1.0 O A:HOH1059 4.7 21.8 1.0 CD A:GLU176 4.8 19.0 1.0 ND1 A:HIS180 4.9 12.8 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of Human Sonic Hedgehog N-Terminal Domain


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of Human Sonic Hedgehog N-Terminal Domain within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn700 b:15.6 occ:1.00 OD1 B:ASP147 1.9 13.4 1.0 NE2 B:HIS140 2.1 8.2 1.0 CD2 B:HIS182 2.1 8.7 1.0 CG B:ASP147 2.8 12.5 1.0 CE1 B:HIS140 2.9 12.2 1.0 OD2 B:ASP147 3.0 15.2 1.0 CG B:HIS182 3.1 10.1 1.0 CD2 B:HIS140 3.2 9.2 1.0 NE2 B:HIS182 3.2 12.5 1.0 CB B:HIS182 3.6 12.0 1.0 OE2 B:GLU176 3.9 14.4 1.0 O B:HOH232 4.1 17.3 1.0 ND1 B:HIS140 4.1 10.4 1.0 CA B:HIS182 4.2 11.8 1.0 CB B:ASP147 4.2 11.8 1.0 CG B:HIS140 4.2 8.9 1.0 CE1 B:HIS182 4.3 10.2 1.0 ND1 B:HIS182 4.3 16.2 1.0 CE1 B:HIS134 4.4 26.0 1.0 O B:VAL146 4.5 11.5 1.0 N B:ASP147 4.5 10.6 1.0 C B:VAL146 4.6 12.2 1.0 ND1 B:HIS134 4.6 23.4 1.0 CA B:ASP147 4.6 12.3 1.0 CE1 B:HIS180 4.7 15.3 1.0 CD B:GLU176 4.9 17.4 1.0 CB B:ALA145 4.9 12.1 1.0

R.B.Pepinsky, P.Rayhorn, E.S.Day, A.Dergay, K.P.Williams, A.Galdes, F.R.Taylor, P.A.Boriack-Sjodin, E.A.Garber. Mapping Sonic Hedgehog-Receptor Interactions By Steric Interference. J.Biol.Chem. V. 275 10995 2000.
ISSN: ISSN 0021-9258
PubMed: 10753901
DOI: 10.1074/JBC.275.15.10995