Zinc in PDB 4cn9: Structure of Proximal Thread Matrix Protein 1 (PTMP1) From the Mussel Byssus with Zinc Occupied Midas Motif

The structure of Structure of Proximal Thread Matrix Protein 1 (PTMP1) From the Mussel Byssus with Zinc Occupied Midas Motif, PDB code: 4cn9 was solved by M.Gertz, M.H.Suhre, T.Scheibel, C.Steegborn, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	43.559 / 1.90
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	61.540, 63.070, 122.350, 90.00, 101.83, 90.00
R / Rfree (%)	17.32 / 20.77

The binding sites of Zinc atom in the Structure of Proximal Thread Matrix Protein 1 (PTMP1) From the Mussel Byssus with Zinc Occupied Midas Motif (pdb code 4cn9). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Structure of Proximal Thread Matrix Protein 1 (PTMP1) From the Mussel Byssus with Zinc Occupied Midas Motif, PDB code: 4cn9:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the Structure of Proximal Thread Matrix Protein 1 (PTMP1) From the Mussel Byssus with Zinc Occupied Midas Motif


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of Proximal Thread Matrix Protein 1 (PTMP1) From the Mussel Byssus with Zinc Occupied Midas Motif within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1448 b:25.9 occ:0.70 OG A:SER64 2.0 24.6 1.0 O A:HOH2011 2.1 27.1 1.0 O A:HOH2010 2.1 19.7 1.0 OD1 A:ASP173 2.1 22.6 1.0 O A:HOH2014 2.1 23.2 1.0 OG A:SER62 2.2 21.8 1.0 CG A:ASP173 3.0 24.6 1.0 HB3 A:SER64 3.0 29.8 1.0 CB A:SER64 3.1 24.8 1.0 HB2 A:SER62 3.2 28.3 1.0 CB A:SER62 3.2 23.6 1.0 OD2 A:ASP173 3.3 24.2 1.0 HB3 A:SER62 3.6 28.3 1.0 HB2 A:SER64 3.6 29.8 1.0 HA3 A:GLY174 3.7 22.6 1.0 H A:SER64 3.8 29.6 1.0 HG13 A:ILE65 3.8 33.5 1.0 OG1 A:THR139 4.0 25.1 1.0 OD2 A:ASP60 4.0 19.5 1.0 OD1 A:ASP60 4.1 19.0 1.0 O A:ASP173 4.1 24.3 1.0 HG1 A:THR139 4.2 30.1 1.0 C A:ASP173 4.2 24.3 1.0 O A:HOH2012 4.2 32.5 1.0 CA A:SER64 4.3 26.2 1.0 N A:GLY174 4.3 20.7 1.0 CA A:GLY174 4.3 18.9 1.0 H A:ASP173 4.3 25.2 1.0 N A:SER64 4.4 24.7 1.0 H A:ILE65 4.4 28.3 1.0 CB A:ASP173 4.4 24.0 1.0 CG A:ASP60 4.5 19.9 1.0 O A:HOH2069 4.5 31.3 1.0 HA2 A:GLY174 4.5 22.6 1.0 CA A:SER62 4.5 20.6 1.0 C A:SER62 4.7 22.8 1.0 CG1 A:ILE65 4.7 27.9 1.0 CA A:ASP173 4.7 22.2 1.0 H A:SER62 4.7 20.5 1.0 H A:GLY174 4.8 24.9 1.0 N A:ILE65 4.8 23.6 1.0 HD12 A:ILE65 4.8 31.2 1.0 C A:SER64 4.9 28.0 1.0 O A:SER62 4.9 22.3 1.0 HG12 A:ILE65 4.9 33.5 1.0 HB3 A:ASP173 4.9 28.8 1.0 N A:ASP173 4.9 21.0 1.0 HB2 A:ASP173 5.0 28.8 1.0

Zinc binding site 2 out of 4 in the Structure of Proximal Thread Matrix Protein 1 (PTMP1) From the Mussel Byssus with Zinc Occupied Midas Motif


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of Proximal Thread Matrix Protein 1 (PTMP1) From the Mussel Byssus with Zinc Occupied Midas Motif within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1449 b:33.4 occ:0.50 OE2 A:GLU48 2.0 38.8 1.0 NE2 A:HIS445 2.0 35.1 1.0 OD2 A:ASP50 2.1 37.8 1.0 O A:HOH2004 2.1 38.8 0.7 O A:HOH2003 2.1 36.2 0.7 OD1 A:ASP50 2.2 31.1 1.0 CG A:ASP50 2.4 31.7 1.0 HE1 A:HIS445 2.5 44.6 1.0 CE1 A:HIS445 2.6 37.2 1.0 HG3 A:GLU48 2.9 39.4 1.0 CD A:GLU48 3.0 36.4 1.0 CD2 A:HIS445 3.3 36.7 1.0 CG A:GLU48 3.4 32.8 1.0 HG22 A:THR88 3.5 41.4 1.0 HD2 A:HIS445 3.7 44.0 1.0 ND1 A:HIS445 3.8 36.2 1.0 HG2 A:GLU48 3.8 39.4 1.0 CB A:ASP50 4.0 32.6 1.0 OE1 A:GLU48 4.1 35.0 1.0 HG1 A:THR88 4.1 47.4 1.0 CG A:HIS445 4.2 31.5 1.0 HB2 A:ASP50 4.3 39.2 1.0 HB3 A:ASP50 4.4 39.2 1.0 CG2 A:THR88 4.4 34.5 1.0 HG21 A:THR88 4.5 41.4 1.0 HD1 A:HIS445 4.5 43.4 1.0 HB2 A:GLU48 4.7 35.1 1.0 CB A:GLU48 4.7 29.2 1.0 H A:ASP50 4.8 30.4 1.0 N A:ASP50 4.8 25.3 1.0 HA A:ASP50 4.8 33.0 1.0 CA A:ASP50 4.8 27.5 1.0 OG1 A:THR88 4.8 39.5 1.0 HG23 A:THR88 5.0 41.4 1.0

Zinc binding site 3 out of 4 in the Structure of Proximal Thread Matrix Protein 1 (PTMP1) From the Mussel Byssus with Zinc Occupied Midas Motif


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Structure of Proximal Thread Matrix Protein 1 (PTMP1) From the Mussel Byssus with Zinc Occupied Midas Motif within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1448 b:46.5 occ:0.50 OE2 B:GLU48 1.9 50.4 1.0 OD2 B:ASP50 2.0 47.3 1.0 NE2 B:HIS445 2.0 43.2 1.0 O B:HOH2003 2.1 45.1 0.7 OD1 B:ASP50 2.2 43.4 1.0 CG B:ASP50 2.4 43.4 1.0 HE1 B:HIS445 2.6 53.6 1.0 CE1 B:HIS445 2.6 44.7 1.0 CD B:GLU48 3.0 50.4 1.0 HG2 B:GLU48 3.2 54.8 1.0 CD2 B:HIS445 3.3 45.0 1.0 CG B:GLU48 3.4 45.6 1.0 HG3 B:GLU48 3.5 54.8 1.0 HG22 B:THR88 3.6 50.8 1.0 HD2 B:HIS445 3.7 54.0 1.0 ND1 B:HIS445 3.9 42.8 1.0 CB B:ASP50 3.9 39.9 1.0 OE1 B:GLU48 4.0 49.0 1.0 HG1 B:THR88 4.1 47.9 1.0 CG B:HIS445 4.2 41.6 1.0 HB2 B:ASP50 4.3 47.8 1.0 HB3 B:ASP50 4.3 47.8 1.0 CG2 B:THR88 4.5 42.3 1.0 HG21 B:THR88 4.5 50.8 1.0 HD1 B:HIS445 4.6 51.3 1.0 OG1 B:THR88 4.8 39.9 1.0 CA B:ASP50 4.8 38.4 1.0 HA B:ASP50 4.8 46.1 1.0 H B:ASP50 4.8 46.2 1.0 N B:ASP50 4.8 38.5 1.0 CB B:GLU48 4.9 48.8 1.0

Zinc binding site 4 out of 4 in the Structure of Proximal Thread Matrix Protein 1 (PTMP1) From the Mussel Byssus with Zinc Occupied Midas Motif


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Structure of Proximal Thread Matrix Protein 1 (PTMP1) From the Mussel Byssus with Zinc Occupied Midas Motif within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1449 b:30.4 occ:0.70 OG B:SER64 2.1 27.7 1.0 O B:HOH2010 2.1 22.2 1.0 OD1 B:ASP173 2.1 24.2 1.0 O B:HOH2011 2.1 26.8 1.0 O B:HOH2013 2.1 25.8 1.0 OG B:SER62 2.1 26.0 1.0 CG B:ASP173 3.0 25.3 1.0 HB2 B:SER62 3.1 32.0 1.0 CB B:SER62 3.1 26.7 1.0 HB3 B:SER64 3.1 34.5 1.0 CB B:SER64 3.2 28.8 1.0 OD2 B:ASP173 3.4 25.1 1.0 HB3 B:SER62 3.5 32.0 1.0 HG1 B:THR139 3.5 28.2 1.0 HB2 B:SER64 3.7 34.5 1.0 HA3 B:GLY174 3.7 27.4 1.0 HG13 B:ILE65 3.8 36.5 1.0 H B:SER64 3.8 29.6 1.0 OD2 B:ASP60 4.0 23.4 1.0 OG1 B:THR139 4.0 23.5 1.0 O B:ASP173 4.1 28.6 1.0 OD1 B:ASP60 4.1 22.6 1.0 C B:ASP173 4.2 27.4 1.0 O B:HOH2047 4.3 35.4 1.0 CA B:SER64 4.3 29.1 1.0 H B:ASP173 4.3 27.4 1.0 H B:ILE65 4.3 35.1 1.0 N B:GLY174 4.3 21.8 1.0 CA B:GLY174 4.3 22.9 1.0 O B:HOH2012 4.4 29.1 1.0 N B:SER64 4.4 24.7 1.0 CB B:ASP173 4.4 21.9 1.0 CA B:SER62 4.4 22.6 1.0 HA2 B:GLY174 4.5 27.4 1.0 CG B:ASP60 4.5 24.2 1.0 CG1 B:ILE65 4.7 30.4 1.0 H B:SER62 4.7 24.5 1.0 C B:SER62 4.7 27.4 1.0 HD12 B:ILE65 4.7 38.3 1.0 CA B:ASP173 4.7 24.0 1.0 N B:ILE65 4.7 29.3 1.0 H B:GLY174 4.8 26.2 1.0 HG12 B:ILE65 4.9 36.5 1.0 C B:SER64 4.9 29.2 1.0 N B:ASP173 4.9 22.8 1.0 O B:SER62 4.9 21.5 1.0 HB2 B:ASP173 4.9 26.3 1.0 HB3 B:ASP173 5.0 26.3 1.0

M.H.Suhre, M.Gertz, C.Steegborn, T.Scheibel. Structural and Functional Features of A Collagen-Binding Matrix Protein From the Mussel Byssus. Nat.Commun. V. 5 3392 2014.
ISSN: ISSN 2041-1723
PubMed: 24569701
DOI: 10.1038/NCOMMS4392