Zinc in PDB 6fue: Periplasmic Coiled Coil Domain of the Fapf Amyloid Transporter

The structure of Periplasmic Coiled Coil Domain of the Fapf Amyloid Transporter, PDB code: 6fue was solved by S.L.Rouse, F.Stylianou, R.M.L.Morgan, S.J.Matthews, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	32.01 / 1.78
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	37.590, 37.700, 57.340, 90.24, 108.95, 119.89
R / Rfree (%)	20.7 / 24.8

The structure of Periplasmic Coiled Coil Domain of the Fapf Amyloid Transporter also contains other interesting chemical elements:

Sodium

(Na)

6 atoms

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 11;

Binding sites:

The binding sites of Zinc atom in the Periplasmic Coiled Coil Domain of the Fapf Amyloid Transporter (pdb code 6fue). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 11 binding sites of Zinc where determined in the Periplasmic Coiled Coil Domain of the Fapf Amyloid Transporter, PDB code: 6fue:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Zinc binding site 1 out of 11 in the Periplasmic Coiled Coil Domain of the Fapf Amyloid Transporter


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Periplasmic Coiled Coil Domain of the Fapf Amyloid Transporter within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn101 b:34.4 occ:1.00 OE2 D:GLU29 1.8 33.8 1.0 O A:HOH223 1.8 40.8 1.0 OE2 A:GLU10 2.0 30.1 1.0 OE1 A:GLU13 2.0 29.1 1.0 CD D:GLU29 2.7 29.5 1.0 CD A:GLU10 2.7 26.6 1.0 OE1 A:GLU10 2.8 33.0 1.0 CD A:GLU13 2.8 30.2 1.0 OE2 A:GLU13 2.9 33.9 1.0 OE1 D:GLU29 2.9 33.6 1.0 O A:HOH210 3.6 50.3 1.0 NH1 D:ARG33 3.8 44.9 1.0 NH2 D:ARG33 3.9 38.1 1.0 O D:HOH203 4.0 54.1 1.0 O D:HOH223 4.1 52.6 1.0 CG D:GLU29 4.1 28.9 1.0 CG A:GLU10 4.2 25.9 1.0 CG A:GLU13 4.2 27.7 1.0 CZ D:ARG33 4.3 40.6 1.0 O C:HOH215 4.6 59.8 1.0 CB A:GLU13 4.8 26.4 1.0 O D:HOH212 4.8 37.1 1.0 O A:HOH208 4.8 37.2 1.0 NH1 E:ARG31 4.9 32.3 1.0 NZ C:LYS15 4.9 50.9 1.0

Zinc binding site 2 out of 11 in the Periplasmic Coiled Coil Domain of the Fapf Amyloid Transporter


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Periplasmic Coiled Coil Domain of the Fapf Amyloid Transporter within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn102 b:50.6 occ:1.00 O A:HOH215 1.7 29.0 1.0 OD2 A:ASP3 1.9 57.0 1.0 OD1 D:ASP37 2.1 63.1 1.0 CG A:ASP3 2.7 48.5 1.0 OD1 A:ASP3 2.9 48.5 1.0 CG D:ASP37 3.1 69.6 1.0 OD2 D:ASP37 3.7 80.5 1.0 OG1 A:THR6 4.0 37.9 1.0 CB A:ASP3 4.1 44.7 1.0 CB D:ASP37 4.3 68.5 1.0 CA D:ASP37 4.3 66.8 1.0 CB D:GLU36 4.4 53.6 1.0 N D:ASP37 4.4 62.4 1.0 C D:GLU36 4.5 59.1 1.0 OE1 D:GLU36 4.5 67.0 1.0 O D:GLU36 4.7 70.5 1.0 CB A:GLU5 4.7 43.6 1.0 O A:HOH243 4.8 67.4 1.0 O D:ARG33 4.9 45.0 1.0 N A:THR6 4.9 32.2 1.0

Zinc binding site 3 out of 11 in the Periplasmic Coiled Coil Domain of the Fapf Amyloid Transporter


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Periplasmic Coiled Coil Domain of the Fapf Amyloid Transporter within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn103 b:34.4 occ:1.00 OE2 A:GLU29 2.0 35.1 1.0 CD A:GLU29 2.7 29.9 1.0 OE1 A:GLU29 2.7 37.9 1.0 NH2 A:ARG33 3.9 35.2 1.0 NH1 A:ARG33 4.1 39.7 1.0 O A:HOH206 4.2 48.8 1.0 O A:HOH240 4.2 92.6 1.0 CG A:GLU29 4.2 28.5 1.0 CZ A:ARG33 4.4 40.3 1.0 O A:HOH219 4.8 39.7 1.0 NH1 B:ARG31 4.9 29.3 1.0

Zinc binding site 4 out of 11 in the Periplasmic Coiled Coil Domain of the Fapf Amyloid Transporter


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Periplasmic Coiled Coil Domain of the Fapf Amyloid Transporter within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn101 b:0.7 occ:1.00 O B:HOH212 2.1 43.8 1.0 O A:HOH226 2.8 55.9 1.0 OE1 B:GLU10 3.2 33.6 1.0 OE2 B:GLU10 3.2 30.2 1.0 OE1 B:GLU13 3.5 31.4 1.0 CD B:GLU10 3.6 28.8 1.0 O B:HOH205 4.0 53.2 1.0 NZ A:LYS15 4.2 49.3 1.0 CD B:GLU13 4.5 32.5 1.0 OE2 B:GLU13 4.9 35.7 1.0

Zinc binding site 5 out of 11 in the Periplasmic Coiled Coil Domain of the Fapf Amyloid Transporter


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Periplasmic Coiled Coil Domain of the Fapf Amyloid Transporter within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn101 b:0.7 occ:1.00 O D:HOH202 2.2 77.3 1.0 OE1 D:GLU13 2.2 33.0 1.0 CD D:GLU13 3.1 33.9 1.0 CB D:GLU13 3.3 27.5 1.0 CG D:GLU13 3.3 32.4 1.0 O D:HOH232 3.8 40.7 1.0 O D:HOH219 3.8 43.6 1.0 O D:HOH222 3.8 44.9 1.0 OE2 D:GLU13 4.3 34.9 1.0 NA D:NA102 4.3 46.2 1.0 NH2 D:ARG17 4.3 67.8 1.0 NE D:ARG17 4.4 57.5 1.0 CA D:GLU13 4.4 28.1 1.0 OE1 D:GLU10 4.7 32.5 1.0 CZ D:ARG17 4.8 66.2 1.0 C D:GLU13 4.8 27.2 1.0 O D:GLU13 5.0 27.9 1.0

Zinc binding site 6 out of 11 in the Periplasmic Coiled Coil Domain of the Fapf Amyloid Transporter


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Periplasmic Coiled Coil Domain of the Fapf Amyloid Transporter within 5.0Å range: probe atom residue distance (Å) B Occ E:Zn101 b:35.0 occ:1.00 OE2 E:GLU29 2.0 38.0 1.0 CD E:GLU29 2.7 33.0 1.0 OE1 E:GLU29 2.8 38.1 1.0 NH2 E:ARG33 3.7 39.7 1.0 NH1 E:ARG33 4.0 43.5 1.0 CG E:GLU29 4.2 31.3 1.0 CZ E:ARG33 4.3 42.0 1.0 O E:HOH205 4.4 46.7 1.0 O E:HOH218 4.8 39.9 1.0 NH1 F:ARG31 4.9 31.9 1.0 O E:HOH241 5.0 57.1 1.0

Zinc binding site 7 out of 11 in the Periplasmic Coiled Coil Domain of the Fapf Amyloid Transporter


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Periplasmic Coiled Coil Domain of the Fapf Amyloid Transporter within 5.0Å range: probe atom residue distance (Å) B Occ E:Zn102 b:34.5 occ:1.00 OE2 E:GLU10 1.9 28.9 1.0 O E:HOH225 2.0 43.1 1.0 OE1 E:GLU13 2.0 32.5 1.0 OE2 C:GLU29 2.0 34.7 1.0 CD E:GLU10 2.7 26.8 1.0 CD E:GLU13 2.7 35.0 1.0 OE1 E:GLU10 2.7 34.5 1.0 CD C:GLU29 2.8 29.9 1.0 OE2 E:GLU13 2.8 37.4 1.0 OE1 C:GLU29 2.8 34.3 1.0 O E:HOH221 3.0 47.0 1.0 NH2 C:ARG33 3.9 36.1 1.0 NH1 C:ARG33 4.0 39.5 1.0 CG E:GLU10 4.1 24.7 1.0 CG E:GLU13 4.2 33.4 1.0 O D:HOH217 4.2 64.5 1.0 CG C:GLU29 4.2 28.6 1.0 O C:HOH203 4.3 45.7 1.0 CZ C:ARG33 4.4 40.1 1.0 O E:HOH211 4.7 40.2 1.0 NZ D:LYS15 4.7 49.0 1.0 CB E:GLU13 4.8 30.3 1.0 O C:HOH216 4.9 35.0 1.0 NH1 A:ARG31 4.9 29.3 1.0

Zinc binding site 8 out of 11 in the Periplasmic Coiled Coil Domain of the Fapf Amyloid Transporter


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of Periplasmic Coiled Coil Domain of the Fapf Amyloid Transporter within 5.0Å range: probe atom residue distance (Å) B Occ F:Zn101 b:35.1 occ:1.00 OE2 F:GLU10 2.0 28.9 1.0 OE1 F:GLU13 2.0 31.2 1.0 O F:HOH222 2.2 47.3 1.0 CD F:GLU10 2.7 28.5 1.0 CD F:GLU13 2.7 33.7 1.0 OE1 F:GLU10 2.8 32.5 1.0 OE2 F:GLU13 2.8 36.1 1.0 CG F:GLU10 4.2 25.9 1.0 CG F:GLU13 4.2 30.7 1.0 CB F:GLU13 4.7 27.6 1.0 O F:HOH206 4.8 40.8 1.0 CA F:GLU10 5.0 24.5 1.0

Zinc binding site 9 out of 11 in the Periplasmic Coiled Coil Domain of the Fapf Amyloid Transporter


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 9 of Periplasmic Coiled Coil Domain of the Fapf Amyloid Transporter within 5.0Å range: probe atom residue distance (Å) B Occ F:Zn102 b:35.1 occ:1.00 OE2 F:GLU29 2.0 36.1 1.0 CD F:GLU29 2.7 30.8 1.0 OE1 F:GLU29 2.7 38.2 1.0 NH2 F:ARG33 3.7 40.4 1.0 NH1 F:ARG33 3.8 45.6 1.0 CG F:GLU29 4.2 29.2 1.0 CZ F:ARG33 4.2 40.0 1.0 O F:HOH220 4.3 61.9 1.0 O F:HOH202 4.3 43.6 1.0 O F:HOH214 4.7 39.9 1.0 NH1 D:ARG31 4.8 30.6 1.0

Zinc binding site 10 out of 11 in the Periplasmic Coiled Coil Domain of the Fapf Amyloid Transporter


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 10 of Periplasmic Coiled Coil Domain of the Fapf Amyloid Transporter within 5.0Å range: probe atom residue distance (Å) B Occ F:Zn103 b:0.2 occ:1.00 O F:HOH236 2.7 46.6 1.0 NE2 F:GLN16 3.6 44.9 1.0 O F:HOH207 4.0 32.6 1.0 OE2 F:GLU19 4.3 58.3 1.0 CD F:LYS15 4.3 39.5 1.0 CG F:GLU19 4.4 42.8 1.0 CB F:LYS15 4.5 30.8 1.0 CD F:GLU19 4.7 49.4 1.0 CD F:GLN16 4.7 45.8 1.0

S.L.Rouse, F.Stylianou, H.Y.G.Wu, J.L.Berry, L.Sewell, R.M.L.Morgan, A.C.Sauerwein, S.Matthews. The Fapf Amyloid Secretion Transporter Possesses An Atypical Asymmetric Coiled Coil. J. Mol. Biol. V. 430 3863 2018.
ISSN: ESSN 1089-8638
PubMed: 29886016
DOI: 10.1016/J.JMB.2018.06.007