Zinc in PDB 1s3q: Crystal Structures of A Novel Open Pore Ferritin From the Hyperthermophilic Archaeon Archaeoglobus Fulgidus

The structure of Crystal Structures of A Novel Open Pore Ferritin From the Hyperthermophilic Archaeon Archaeoglobus Fulgidus, PDB code: 1s3q was solved by E.Johnson, D.Cascio, M.Sawaya, I.Schroeder, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	15.01 / 2.10
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	183.437, 187.831, 178.089, 90.00, 90.00, 90.00
R / Rfree (%)	17.9 / 21.8

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 24;

Binding sites:

The binding sites of Zinc atom in the Crystal Structures of A Novel Open Pore Ferritin From the Hyperthermophilic Archaeon Archaeoglobus Fulgidus (pdb code 1s3q). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 24 binding sites of Zinc where determined in the Crystal Structures of A Novel Open Pore Ferritin From the Hyperthermophilic Archaeon Archaeoglobus Fulgidus, PDB code: 1s3q:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Zinc binding site 1 out of 24 in the Crystal Structures of A Novel Open Pore Ferritin From the Hyperthermophilic Archaeon Archaeoglobus Fulgidus


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structures of A Novel Open Pore Ferritin From the Hyperthermophilic Archaeon Archaeoglobus Fulgidus within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn901 b:26.2 occ:0.40 ND1 A:HIS55 2.0 18.7 1.0 OE1 A:GLU19 2.0 29.3 1.0 OE1 A:GLU52 2.1 20.6 1.0 O A:HOH971 2.1 35.3 1.0 O A:HOH937 2.7 48.5 1.0 CE1 A:HIS55 2.8 25.8 1.0 ZN A:ZN902 3.0 38.1 0.3 CD A:GLU52 3.1 20.4 1.0 CG A:HIS55 3.1 23.1 1.0 CD A:GLU19 3.1 31.6 1.0 OE2 A:GLU52 3.4 24.8 1.0 OE2 A:GLU19 3.5 32.8 1.0 CB A:HIS55 3.6 20.8 1.0 NE2 A:HIS55 4.0 24.4 1.0 CD2 A:HIS55 4.1 22.9 1.0 OE1 A:GLN129 4.2 20.0 1.0 CG A:GLU52 4.4 19.6 1.0 CG A:GLU19 4.4 29.2 1.0 CA A:GLU52 4.5 18.4 1.0 CB A:GLU52 4.6 17.7 1.0 CB A:GLU19 4.7 25.9 1.0 OE1 A:GLU96 4.8 23.4 1.0 OE1 A:GLU132 4.8 36.5 1.0 OE2 A:GLU96 4.8 35.6 1.0 CG1 A:VAL99 4.9 22.7 1.0

Zinc binding site 2 out of 24 in the Crystal Structures of A Novel Open Pore Ferritin From the Hyperthermophilic Archaeon Archaeoglobus Fulgidus


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structures of A Novel Open Pore Ferritin From the Hyperthermophilic Archaeon Archaeoglobus Fulgidus within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn902 b:38.1 occ:0.30 OE2 A:GLU52 2.1 24.8 1.0 OE1 A:GLU132 2.3 36.5 1.0 OE2 A:GLU96 2.3 35.6 1.0 OE1 A:GLU96 2.6 23.4 1.0 CD A:GLU96 2.7 27.1 1.0 O A:HOH937 2.8 48.5 1.0 CD A:GLU52 2.9 20.4 1.0 ZN A:ZN901 3.0 26.2 0.4 OE1 A:GLU52 3.0 20.6 1.0 CD A:GLU132 3.1 31.2 1.0 CG A:GLU132 3.5 24.8 1.0 CE1 A:HIS55 3.8 25.8 1.0 NE2 A:GLN48 4.0 20.1 1.0 ND1 A:HIS55 4.0 18.7 1.0 OE2 A:GLU132 4.0 36.4 1.0 OE1 A:GLN129 4.0 20.0 1.0 O A:HOH971 4.1 35.3 1.0 O A:HOH915 4.1 37.6 1.0 CG A:GLU96 4.1 24.1 1.0 CB A:GLU132 4.2 24.0 1.0 CG A:GLU52 4.3 19.6 1.0 OH A:TYR26 4.6 29.4 1.0 NE2 A:GLN129 4.7 17.8 1.0 OE1 A:GLU19 4.7 29.3 1.0 CE1 A:TYR26 4.7 20.9 1.0 CD A:GLN129 4.8 22.5 1.0

Zinc binding site 3 out of 24 in the Crystal Structures of A Novel Open Pore Ferritin From the Hyperthermophilic Archaeon Archaeoglobus Fulgidus


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structures of A Novel Open Pore Ferritin From the Hyperthermophilic Archaeon Archaeoglobus Fulgidus within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn903 b:29.0 occ:0.40 OE1 B:GLU19 2.0 31.8 1.0 ND1 B:HIS55 2.0 23.8 1.0 OE1 B:GLU52 2.1 22.6 1.0 O B:HOH967 2.2 37.6 1.0 CE1 B:HIS55 2.8 27.4 1.0 O B:HOH917 2.8 43.4 1.0 ZN B:ZN904 2.9 43.4 0.3 CD B:GLU19 3.0 31.7 1.0 CD B:GLU52 3.1 26.9 1.0 CG B:HIS55 3.2 23.6 1.0 OE2 B:GLU19 3.4 34.6 1.0 OE2 B:GLU52 3.5 25.1 1.0 CB B:HIS55 3.6 24.6 1.0 NE2 B:HIS55 4.0 24.6 1.0 OE1 B:GLN129 4.2 22.4 1.0 CD2 B:HIS55 4.2 25.1 1.0 CG B:GLU19 4.3 28.4 1.0 CG B:GLU52 4.4 22.6 1.0 CA B:GLU52 4.6 19.4 1.0 CB B:GLU19 4.7 26.1 1.0 CB B:GLU52 4.7 20.4 1.0 OE1 B:GLU96 4.8 29.1 1.0 OE1 B:GLU132 4.9 37.5 1.0 CG1 B:VAL99 4.9 26.9 1.0 OE2 B:GLU96 4.9 35.0 1.0

Zinc binding site 4 out of 24 in the Crystal Structures of A Novel Open Pore Ferritin From the Hyperthermophilic Archaeon Archaeoglobus Fulgidus


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Crystal Structures of A Novel Open Pore Ferritin From the Hyperthermophilic Archaeon Archaeoglobus Fulgidus within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn904 b:43.4 occ:0.30 OE2 B:GLU52 2.1 25.1 1.0 OE1 B:GLU132 2.2 37.5 1.0 OE2 B:GLU96 2.5 35.0 1.0 OE1 B:GLU96 2.6 29.1 1.0 CD B:GLU96 2.8 29.2 1.0 CD B:GLU52 2.9 26.9 1.0 ZN B:ZN903 2.9 29.0 0.4 CD B:GLU132 3.0 35.7 1.0 OE1 B:GLU52 3.0 22.6 1.0 O B:HOH917 3.0 43.4 1.0 CG B:GLU132 3.7 33.9 1.0 CE1 B:HIS55 3.7 27.4 1.0 OE1 B:GLN129 3.8 22.4 1.0 OE2 B:GLU132 3.8 42.6 1.0 ND1 B:HIS55 3.9 23.8 1.0 O B:HOH967 4.0 37.6 1.0 NE2 B:GLN48 4.1 23.1 1.0 CG B:GLU96 4.2 26.2 1.0 O B:HOH929 4.3 37.4 1.0 CG B:GLU52 4.3 22.6 1.0 CB B:GLU132 4.4 30.0 1.0 NE2 B:GLN129 4.5 22.7 1.0 CD B:GLN129 4.6 25.5 1.0 OE1 B:GLU19 4.6 31.8 1.0 OH B:TYR26 4.9 34.8 1.0 NE2 B:HIS55 4.9 24.6 1.0

Zinc binding site 5 out of 24 in the Crystal Structures of A Novel Open Pore Ferritin From the Hyperthermophilic Archaeon Archaeoglobus Fulgidus


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Crystal Structures of A Novel Open Pore Ferritin From the Hyperthermophilic Archaeon Archaeoglobus Fulgidus within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn905 b:34.2 occ:0.40 ND1 C:HIS55 2.0 25.1 1.0 OE1 C:GLU19 2.0 30.5 1.0 OE1 C:GLU52 2.1 24.0 1.0 O C:HOH943 2.4 51.4 1.0 CE1 C:HIS55 2.7 29.9 1.0 CD C:GLU52 3.1 24.6 1.0 ZN C:ZN906 3.1 41.0 0.3 CD C:GLU19 3.1 31.7 1.0 CG C:HIS55 3.2 28.7 1.0 OE2 C:GLU52 3.4 28.9 1.0 OE2 C:GLU19 3.5 34.5 1.0 CB C:HIS55 3.7 25.9 1.0 NE2 C:HIS55 3.9 27.5 1.0 OE1 C:GLN129 4.1 26.8 1.0 CD2 C:HIS55 4.2 26.9 1.0 CG C:GLU19 4.4 29.8 1.0 CG C:GLU52 4.4 23.2 1.0 CA C:GLU52 4.6 22.6 1.0 OE1 C:GLU96 4.7 26.7 1.0 CB C:GLU52 4.8 22.7 1.0 CB C:GLU19 4.8 26.6 1.0 OE1 C:GLU132 4.8 41.5 1.0 CG1 C:VAL99 5.0 27.8 1.0

Zinc binding site 6 out of 24 in the Crystal Structures of A Novel Open Pore Ferritin From the Hyperthermophilic Archaeon Archaeoglobus Fulgidus


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Crystal Structures of A Novel Open Pore Ferritin From the Hyperthermophilic Archaeon Archaeoglobus Fulgidus within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn906 b:41.0 occ:0.30 OE2 C:GLU52 2.1 28.9 1.0 OE1 C:GLU132 2.2 41.5 1.0 OE1 C:GLU96 2.5 26.7 1.0 OE2 C:GLU96 2.5 32.5 1.0 CD C:GLU96 2.7 27.6 1.0 CD C:GLU132 3.0 35.1 1.0 CD C:GLU52 3.0 24.6 1.0 ZN C:ZN905 3.1 34.2 0.4 OE1 C:GLU52 3.3 24.0 1.0 CG C:GLU132 3.4 32.1 1.0 CE1 C:HIS55 3.9 29.9 1.0 OE1 C:GLN129 3.9 26.8 1.0 NE2 C:GLN48 3.9 27.6 1.0 OE2 C:GLU132 4.0 39.1 1.0 CB C:GLU132 4.0 30.2 1.0 CG C:GLU96 4.0 26.4 1.0 O C:HOH934 4.1 38.0 1.0 ND1 C:HIS55 4.2 25.1 1.0 O C:HOH943 4.4 51.4 1.0 CG C:GLU52 4.4 23.2 1.0 OH C:TYR26 4.7 31.0 1.0 NE2 C:GLN129 4.7 22.4 1.0 CD C:GLN129 4.7 26.3 1.0 OE1 C:GLU19 4.7 30.5 1.0 CE1 C:TYR26 4.8 24.9 1.0

Zinc binding site 7 out of 24 in the Crystal Structures of A Novel Open Pore Ferritin From the Hyperthermophilic Archaeon Archaeoglobus Fulgidus


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Crystal Structures of A Novel Open Pore Ferritin From the Hyperthermophilic Archaeon Archaeoglobus Fulgidus within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn907 b:28.8 occ:0.40 OE2 D:GLU52 2.0 20.8 1.0 ND1 D:HIS55 2.0 20.0 1.0 OE1 D:GLU19 2.2 30.4 1.0 O D:HOH913 2.6 39.2 1.0 CE1 D:HIS55 2.8 25.6 1.0 ZN D:ZN908 2.9 37.8 0.3 CD D:GLU52 3.0 22.1 1.0 CG D:HIS55 3.2 24.9 1.0 CD D:GLU19 3.2 32.1 1.0 OE1 D:GLU52 3.3 22.4 1.0 OE2 D:GLU19 3.6 33.9 1.0 CB D:HIS55 3.7 24.6 1.0 NE2 D:HIS55 4.0 22.8 1.0 OE1 D:GLN129 4.2 19.6 1.0 CD2 D:HIS55 4.2 24.8 1.0 CG D:GLU52 4.3 19.4 1.0 CA D:GLU52 4.5 21.2 1.0 CG D:GLU19 4.6 29.5 1.0 CB D:GLU52 4.6 18.9 1.0 OE1 D:GLU96 4.7 22.8 1.0 OE2 D:GLU96 4.8 34.6 1.0 CB D:GLU19 4.9 25.8 1.0 CG1 D:VAL99 4.9 28.1 1.0 OE1 D:GLU132 5.0 36.4 1.0

Zinc binding site 8 out of 24 in the Crystal Structures of A Novel Open Pore Ferritin From the Hyperthermophilic Archaeon Archaeoglobus Fulgidus


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of Crystal Structures of A Novel Open Pore Ferritin From the Hyperthermophilic Archaeon Archaeoglobus Fulgidus within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn908 b:37.8 occ:0.30 OE1 D:GLU52 2.0 22.4 1.0 OE2 D:GLU96 2.5 34.6 1.0 OE1 D:GLU96 2.6 22.8 1.0 OE1 D:GLU132 2.6 36.4 1.0 CD D:GLU96 2.7 27.5 1.0 CD D:GLU52 2.9 22.1 1.0 ZN D:ZN907 2.9 28.8 0.4 O D:HOH913 3.0 39.2 1.0 OE2 D:GLU52 3.1 20.8 1.0 CD D:GLU132 3.3 29.5 1.0 CG D:GLU132 3.6 26.4 1.0 CE1 D:HIS55 3.9 25.6 1.0 NE2 D:GLN48 4.0 26.4 1.0 OE1 D:GLN129 4.0 19.6 1.0 O D:HOH923 4.0 33.8 1.0 CG D:GLU96 4.0 23.8 1.0 ND1 D:HIS55 4.1 20.0 1.0 CB D:GLU132 4.1 24.6 1.0 CG D:GLU52 4.3 19.4 1.0 OE2 D:GLU132 4.3 39.2 1.0 NE2 D:GLN129 4.7 21.0 1.0 CE1 D:TYR26 4.7 22.2 1.0 OE1 D:GLU19 4.8 30.4 1.0 OH D:TYR26 4.8 26.2 1.0 CD D:GLN129 4.8 21.7 1.0

Zinc binding site 9 out of 24 in the Crystal Structures of A Novel Open Pore Ferritin From the Hyperthermophilic Archaeon Archaeoglobus Fulgidus


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 9 of Crystal Structures of A Novel Open Pore Ferritin From the Hyperthermophilic Archaeon Archaeoglobus Fulgidus within 5.0Å range: probe atom residue distance (Å) B Occ E:Zn909 b:33.4 occ:0.40 ND1 E:HIS55 2.0 25.1 1.0 OE1 E:GLU19 2.1 31.4 1.0 OE1 E:GLU52 2.1 21.9 1.0 CE1 E:HIS55 2.9 26.9 1.0 ZN E:ZN910 2.9 38.3 0.3 O E:HOH912 3.0 47.9 1.0 CG E:HIS55 3.1 24.4 1.0 CD E:GLU52 3.1 21.6 1.0 CD E:GLU19 3.2 31.3 1.0 CB E:HIS55 3.5 25.1 1.0 OE2 E:GLU52 3.5 25.1 1.0 OE2 E:GLU19 3.6 33.9 1.0 NE2 E:HIS55 4.1 26.1 1.0 OE1 E:GLN129 4.2 22.6 1.0 CD2 E:HIS55 4.2 26.6 1.0 CG E:GLU52 4.5 23.7 1.0 CG E:GLU19 4.5 29.2 1.0 CA E:GLU52 4.5 22.1 1.0 CB E:GLU52 4.7 23.4 1.0 CG1 E:VAL99 4.8 25.2 1.0 CB E:GLU19 4.8 26.3 1.0 OE1 E:GLU96 4.9 24.0 1.0 OE1 E:GLU132 4.9 38.5 1.0 OE2 E:GLU96 5.0 36.2 1.0

Zinc binding site 10 out of 24 in the Crystal Structures of A Novel Open Pore Ferritin From the Hyperthermophilic Archaeon Archaeoglobus Fulgidus


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 10 of Crystal Structures of A Novel Open Pore Ferritin From the Hyperthermophilic Archaeon Archaeoglobus Fulgidus within 5.0Å range: probe atom residue distance (Å) B Occ E:Zn910 b:38.3 occ:0.30 OE2 E:GLU52 2.4 25.1 1.0 OE1 E:GLU96 2.4 24.0 1.0 OE2 E:GLU96 2.5 36.2 1.0 OE1 E:GLU132 2.5 38.5 1.0 O E:HOH912 2.7 47.9 1.0 CD E:GLU96 2.7 29.9 1.0 ZN E:ZN909 2.9 33.4 0.4 CD E:GLU52 3.1 21.6 1.0 OE1 E:GLU52 3.1 21.9 1.0 CD E:GLU132 3.2 32.1 1.0 CG E:GLU132 3.4 29.7 1.0 OE1 E:GLN129 3.8 22.6 1.0 CE1 E:HIS55 3.9 26.9 1.0 CB E:GLU132 4.0 26.1 1.0 ND1 E:HIS55 4.0 25.1 1.0 CG E:GLU96 4.1 26.2 1.0 NE2 E:GLN48 4.1 26.3 1.0 OE2 E:GLU132 4.2 38.2 1.0 O E:HOH973 4.3 46.0 1.0 NE2 E:GLN129 4.5 21.7 1.0 CD E:GLN129 4.5 26.1 1.0 CG E:GLU52 4.6 23.7 1.0 OE1 E:GLU19 4.7 31.4 1.0 OH E:TYR26 4.7 27.7 1.0 CG1 E:VAL99 4.9 25.2 1.0 CE1 E:TYR26 5.0 20.5 1.0

E.Johnson, D.Cascio, M.R.Sawaya, M.Gingery, I.Schroder. Crystal Structures of A Tetrahedral Open Pore Ferritin From the Hyperthermophilic Archaeon Archaeoglobus Fulgidus. Structure V. 13 637 2005.
ISSN: ISSN 0969-2126
PubMed: 15837202
DOI: 10.1016/J.STR.2005.01.019