Cobalt in PDB 8eyz: Engineered Glutamine Binding Protein Bound to Gln and A Cobaloxime Ligand

The structure of Engineered Glutamine Binding Protein Bound to Gln and A Cobaloxime Ligand, PDB code: 8eyz was solved by J.Bridwell-Rabb, D.G.Boggs, L.Olshansky, S.Fatima, P.Thompson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	41.90 / 2.99
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	75.125, 136.091, 150.98, 90, 90.16, 90
R / Rfree (%)	23.3 / 26.6

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 12;

Binding sites:

The binding sites of Cobalt atom in the Engineered Glutamine Binding Protein Bound to Gln and A Cobaloxime Ligand (pdb code 8eyz). This binding sites where shown within 5.0 Angstroms radius around Cobalt atom.
In total 12 binding sites of Cobalt where determined in the Engineered Glutamine Binding Protein Bound to Gln and A Cobaloxime Ligand, PDB code: 8eyz:
Jump to Cobalt binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Cobalt binding site 1 out of 12 in the Engineered Glutamine Binding Protein Bound to Gln and A Cobaloxime Ligand


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 1 of Engineered Glutamine Binding Protein Bound to Gln and A Cobaloxime Ligand within 5.0Å range: probe atom residue distance (Å) B Occ A:Co301 b:117.3 occ:1.00 CO01 A:X5Z301 0.0 117.3 1.0 N10 A:X5Z301 1.9 106.8 1.0 N12 A:X5Z301 1.9 95.9 1.0 N09 A:X5Z301 1.9 103.4 1.0 N11 A:X5Z301 1.9 100.2 1.0 N13 A:X5Z301 2.0 106.2 1.0 SG A:CYS72 2.4 87.0 1.0 N14 A:X5Z301 2.7 103.1 1.0 C20 A:X5Z301 2.7 99.6 1.0 C21 A:X5Z301 2.7 103.7 1.0 C22 A:X5Z301 2.7 97.9 1.0 C23 A:X5Z301 2.7 94.1 1.0 O04 A:X5Z301 2.8 101.7 1.0 O03 A:X5Z301 2.8 93.1 1.0 O06 A:X5Z301 2.9 94.2 1.0 O05 A:X5Z301 2.9 94.7 1.0 CB A:CYS72 3.7 70.0 1.0 N15 A:X5Z301 3.7 102.1 1.0 C25 A:X5Z301 4.2 91.0 1.0 C24 A:X5Z301 4.2 85.8 1.0 C27 A:X5Z301 4.2 87.3 1.0 C26 A:X5Z301 4.2 101.6 1.0 CA A:CYS72 4.6 64.7 1.0

Cobalt binding site 2 out of 12 in the Engineered Glutamine Binding Protein Bound to Gln and A Cobaloxime Ligand


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 2 of Engineered Glutamine Binding Protein Bound to Gln and A Cobaloxime Ligand within 5.0Å range: probe atom residue distance (Å) B Occ B:Co301 b:117.0 occ:1.00 CO01 B:X5Z301 0.0 117.0 1.0 N10 B:X5Z301 1.9 86.9 1.0 N12 B:X5Z301 1.9 92.7 1.0 N09 B:X5Z301 1.9 97.1 1.0 N11 B:X5Z301 1.9 92.3 1.0 N13 B:X5Z301 2.0 97.7 1.0 SG B:CYS72 2.1 78.8 1.0 N14 B:X5Z301 2.7 101.5 1.0 C20 B:X5Z301 2.7 79.6 1.0 C21 B:X5Z301 2.7 82.4 1.0 C22 B:X5Z301 2.7 92.0 1.0 C23 B:X5Z301 2.7 90.5 1.0 O04 B:X5Z301 2.8 84.8 1.0 O03 B:X5Z301 2.8 102.1 1.0 O06 B:X5Z301 2.9 72.2 1.0 O05 B:X5Z301 2.9 83.7 1.0 CB B:CYS72 3.5 58.5 1.0 N15 B:X5Z301 3.7 103.6 1.0 C25 B:X5Z301 4.2 76.3 1.0 C24 B:X5Z301 4.2 68.3 1.0 C27 B:X5Z301 4.2 82.0 1.0 C26 B:X5Z301 4.2 86.8 1.0 CA B:CYS72 4.4 55.8 1.0 N B:ASP73 4.9 62.8 1.0

Cobalt binding site 3 out of 12 in the Engineered Glutamine Binding Protein Bound to Gln and A Cobaloxime Ligand


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 3 of Engineered Glutamine Binding Protein Bound to Gln and A Cobaloxime Ligand within 5.0Å range: probe atom residue distance (Å) B Occ C:Co301 b:145.7 occ:1.00 CO01 C:X5Z301 0.0 145.7 1.0 N10 C:X5Z301 1.9 109.5 1.0 N12 C:X5Z301 1.9 126.0 1.0 N09 C:X5Z301 1.9 118.0 1.0 N11 C:X5Z301 1.9 124.4 1.0 N13 C:X5Z301 2.0 113.5 1.0 SG C:CYS72 2.1 109.1 1.0 N14 C:X5Z301 2.7 113.7 1.0 C20 C:X5Z301 2.7 105.6 1.0 C21 C:X5Z301 2.7 101.3 1.0 C22 C:X5Z301 2.7 123.3 1.0 C23 C:X5Z301 2.7 124.9 1.0 O04 C:X5Z301 2.8 104.8 1.0 O03 C:X5Z301 2.8 115.7 1.0 O06 C:X5Z301 2.9 120.0 1.0 O05 C:X5Z301 2.9 108.8 1.0 CB C:CYS72 3.5 87.3 1.0 N15 C:X5Z301 3.7 120.5 1.0 C25 C:X5Z301 4.2 86.0 1.0 C24 C:X5Z301 4.2 87.9 1.0 C27 C:X5Z301 4.2 118.7 1.0 C26 C:X5Z301 4.2 117.2 1.0 CA C:CYS72 4.5 73.4 1.0

Cobalt binding site 4 out of 12 in the Engineered Glutamine Binding Protein Bound to Gln and A Cobaloxime Ligand


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 4 of Engineered Glutamine Binding Protein Bound to Gln and A Cobaloxime Ligand within 5.0Å range: probe atom residue distance (Å) B Occ D:Co301 b:130.5 occ:1.00 CO01 D:X5Z301 0.0 130.5 1.0 N10 D:X5Z301 1.9 104.4 1.0 N12 D:X5Z301 1.9 106.9 1.0 N09 D:X5Z301 1.9 110.0 1.0 N11 D:X5Z301 1.9 108.5 1.0 N13 D:X5Z301 2.0 114.4 1.0 SG D:CYS72 2.4 95.9 1.0 N14 D:X5Z301 2.7 119.1 1.0 C20 D:X5Z301 2.7 98.5 1.0 C21 D:X5Z301 2.7 103.1 1.0 C22 D:X5Z301 2.7 98.8 1.0 C23 D:X5Z301 2.7 100.9 1.0 O04 D:X5Z301 2.8 103.7 1.0 O03 D:X5Z301 2.8 111.3 1.0 O06 D:X5Z301 2.9 91.9 1.0 O05 D:X5Z301 2.9 100.1 1.0 CB D:CYS72 3.6 68.6 1.0 N15 D:X5Z301 3.7 116.2 1.0 C25 D:X5Z301 4.2 93.9 1.0 C24 D:X5Z301 4.2 84.2 1.0 C27 D:X5Z301 4.2 102.3 1.0 C26 D:X5Z301 4.2 92.1 1.0 CA D:CYS72 4.7 67.0 1.0 OE2 D:GLU181 5.0 89.0 1.0

Cobalt binding site 5 out of 12 in the Engineered Glutamine Binding Protein Bound to Gln and A Cobaloxime Ligand


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 5 of Engineered Glutamine Binding Protein Bound to Gln and A Cobaloxime Ligand within 5.0Å range: probe atom residue distance (Å) B Occ E:Co301 b:155.3 occ:1.00 CO01 E:X5Z301 0.0 155.3 1.0 N10 E:X5Z301 1.9 116.5 1.0 N12 E:X5Z301 1.9 134.0 1.0 N09 E:X5Z301 1.9 119.6 1.0 N11 E:X5Z301 1.9 137.5 1.0 N13 E:X5Z301 2.0 133.0 1.0 SG E:CYS72 2.3 113.6 1.0 N14 E:X5Z301 2.7 130.3 1.0 C20 E:X5Z301 2.7 109.4 1.0 C21 E:X5Z301 2.7 105.3 1.0 C22 E:X5Z301 2.7 134.4 1.0 C23 E:X5Z301 2.7 131.2 1.0 O04 E:X5Z301 2.8 119.2 1.0 O03 E:X5Z301 2.8 115.8 1.0 O06 E:X5Z301 2.9 129.5 1.0 O05 E:X5Z301 2.9 131.6 1.0 CB E:CYS72 3.5 94.4 1.0 N15 E:X5Z301 3.7 126.3 1.0 C25 E:X5Z301 4.2 98.4 1.0 C24 E:X5Z301 4.2 101.7 1.0 C27 E:X5Z301 4.2 118.7 1.0 C26 E:X5Z301 4.2 129.1 1.0 CA E:CYS72 4.5 92.8 1.0

Cobalt binding site 6 out of 12 in the Engineered Glutamine Binding Protein Bound to Gln and A Cobaloxime Ligand


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 6 of Engineered Glutamine Binding Protein Bound to Gln and A Cobaloxime Ligand within 5.0Å range: probe atom residue distance (Å) B Occ F:Co301 b:139.8 occ:1.00 CO01 F:X5Z301 0.0 139.8 1.0 N10 F:X5Z301 1.9 114.3 1.0 N12 F:X5Z301 1.9 114.9 1.0 N09 F:X5Z301 1.9 113.8 1.0 N11 F:X5Z301 1.9 119.0 1.0 N13 F:X5Z301 2.0 118.3 1.0 SG F:CYS72 2.2 96.0 1.0 N14 F:X5Z301 2.7 115.0 1.0 C20 F:X5Z301 2.7 106.1 1.0 C21 F:X5Z301 2.7 105.3 1.0 C22 F:X5Z301 2.7 117.8 1.0 C23 F:X5Z301 2.7 112.5 1.0 O04 F:X5Z301 2.8 105.2 1.0 O03 F:X5Z301 2.8 117.3 1.0 O06 F:X5Z301 2.9 106.3 1.0 O05 F:X5Z301 2.9 108.3 1.0 CB F:CYS72 3.3 76.2 1.0 N15 F:X5Z301 3.7 118.4 1.0 C25 F:X5Z301 4.2 87.5 1.0 C24 F:X5Z301 4.2 101.3 1.0 C27 F:X5Z301 4.2 100.9 1.0 C26 F:X5Z301 4.2 120.5 1.0 CA F:CYS72 4.3 77.4 1.0 OE2 F:GLU181 4.7 109.1 1.0 N F:ASP73 5.0 83.2 1.0

Cobalt binding site 7 out of 12 in the Engineered Glutamine Binding Protein Bound to Gln and A Cobaloxime Ligand


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 7 of Engineered Glutamine Binding Protein Bound to Gln and A Cobaloxime Ligand within 5.0Å range: probe atom residue distance (Å) B Occ G:Co301 b:149.7 occ:1.00 CO01 G:X5Z301 0.0 149.7 1.0 N10 G:X5Z301 1.9 113.3 1.0 N12 G:X5Z301 1.9 117.8 1.0 N09 G:X5Z301 1.9 120.1 1.0 N11 G:X5Z301 1.9 121.2 1.0 N13 G:X5Z301 2.0 123.1 1.0 SG G:CYS72 2.2 99.8 1.0 N14 G:X5Z301 2.7 126.7 1.0 C20 G:X5Z301 2.7 106.9 1.0 C21 G:X5Z301 2.7 101.7 1.0 C22 G:X5Z301 2.7 117.2 1.0 C23 G:X5Z301 2.7 111.2 1.0 O04 G:X5Z301 2.8 104.8 1.0 O03 G:X5Z301 2.8 118.9 1.0 O06 G:X5Z301 2.9 109.6 1.0 O05 G:X5Z301 2.9 113.4 1.0 CB G:CYS72 3.5 75.3 1.0 N15 G:X5Z301 3.7 132.0 1.0 C25 G:X5Z301 4.2 89.9 1.0 C24 G:X5Z301 4.2 101.5 1.0 C27 G:X5Z301 4.2 105.6 1.0 C26 G:X5Z301 4.2 112.0 1.0 CA G:CYS72 4.4 66.4 1.0 OE2 G:GLU181 4.9 76.5 1.0 N G:ASP73 5.0 84.8 1.0

Cobalt binding site 8 out of 12 in the Engineered Glutamine Binding Protein Bound to Gln and A Cobaloxime Ligand


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 8 of Engineered Glutamine Binding Protein Bound to Gln and A Cobaloxime Ligand within 5.0Å range: probe atom residue distance (Å) B Occ H:Co301 b:129.8 occ:1.00 CO01 H:X5Z301 0.0 129.8 1.0 N10 H:X5Z301 1.9 108.9 1.0 N12 H:X5Z301 1.9 110.3 1.0 N09 H:X5Z301 1.9 114.0 1.0 N11 H:X5Z301 1.9 110.1 1.0 N13 H:X5Z301 2.0 112.7 1.0 SG H:CYS72 2.2 99.8 1.0 N14 H:X5Z301 2.7 117.5 1.0 C20 H:X5Z301 2.7 105.9 1.0 C21 H:X5Z301 2.7 106.0 1.0 C22 H:X5Z301 2.7 105.2 1.0 C23 H:X5Z301 2.7 105.1 1.0 O04 H:X5Z301 2.8 103.6 1.0 O03 H:X5Z301 2.8 112.4 1.0 O06 H:X5Z301 2.9 108.7 1.0 O05 H:X5Z301 2.9 101.2 1.0 CB H:CYS72 3.6 77.2 1.0 N15 H:X5Z301 3.7 120.6 1.0 C25 H:X5Z301 4.2 95.8 1.0 C24 H:X5Z301 4.2 91.0 1.0 C27 H:X5Z301 4.2 101.5 1.0 C26 H:X5Z301 4.2 99.8 1.0 CA H:CYS72 4.5 69.7 1.0 N H:ASP73 4.9 78.7 1.0

Cobalt binding site 9 out of 12 in the Engineered Glutamine Binding Protein Bound to Gln and A Cobaloxime Ligand


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 9 of Engineered Glutamine Binding Protein Bound to Gln and A Cobaloxime Ligand within 5.0Å range: probe atom residue distance (Å) B Occ I:Co301 b:153.2 occ:1.00 CO01 I:X5Z301 0.0 153.2 1.0 N10 I:X5Z301 1.9 125.0 1.0 N12 I:X5Z301 1.9 123.2 1.0 N09 I:X5Z301 1.9 120.1 1.0 N11 I:X5Z301 1.9 121.7 1.0 N13 I:X5Z301 2.0 128.7 1.0 SG I:CYS72 2.3 102.7 1.0 N14 I:X5Z301 2.7 132.6 1.0 C20 I:X5Z301 2.7 118.0 1.0 C21 I:X5Z301 2.7 113.7 1.0 C22 I:X5Z301 2.7 120.5 1.0 C23 I:X5Z301 2.7 116.8 1.0 O04 I:X5Z301 2.8 125.8 1.0 O03 I:X5Z301 2.8 114.0 1.0 O06 I:X5Z301 2.9 118.6 1.0 O05 I:X5Z301 2.9 111.4 1.0 CB I:CYS72 3.6 94.9 1.0 N15 I:X5Z301 3.7 135.0 1.0 C25 I:X5Z301 4.2 102.3 1.0 C24 I:X5Z301 4.2 115.0 1.0 C27 I:X5Z301 4.2 108.9 1.0 C26 I:X5Z301 4.2 116.2 1.0 CA I:CYS72 4.5 86.8 1.0 N I:ASP73 4.7 88.0 1.0

Cobalt binding site 10 out of 12 in the Engineered Glutamine Binding Protein Bound to Gln and A Cobaloxime Ligand


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 10 of Engineered Glutamine Binding Protein Bound to Gln and A Cobaloxime Ligand within 5.0Å range: probe atom residue distance (Å) B Occ J:Co301 b:131.1 occ:1.00 CO01 J:X5Z301 0.0 131.1 1.0 N10 J:X5Z301 1.9 117.8 1.0 N12 J:X5Z301 1.9 107.8 1.0 N09 J:X5Z301 1.9 114.5 1.0 N11 J:X5Z301 1.9 103.8 1.0 N13 J:X5Z301 2.0 115.7 1.0 SG J:CYS72 2.3 108.6 1.0 N14 J:X5Z301 2.7 113.6 1.0 C20 J:X5Z301 2.7 115.3 1.0 C21 J:X5Z301 2.7 113.4 1.0 C22 J:X5Z301 2.7 100.8 1.0 C23 J:X5Z301 2.7 103.7 1.0 O04 J:X5Z301 2.8 111.6 1.0 O03 J:X5Z301 2.8 105.5 1.0 O06 J:X5Z301 2.9 101.6 1.0 O05 J:X5Z301 2.9 99.5 1.0 CB J:CYS72 3.6 85.8 1.0 N15 J:X5Z301 3.7 109.4 1.0 C25 J:X5Z301 4.2 104.0 1.0 C24 J:X5Z301 4.2 109.2 1.0 C27 J:X5Z301 4.2 99.4 1.0 C26 J:X5Z301 4.2 103.4 1.0 CA J:CYS72 4.7 86.2 1.0 OE2 J:GLU181 5.0 104.6 1.0

S.Fatima, D.G.Boggs, N.Ali, P.J.Thompson, M.C.Thielges, J.Bridwell-Rabb, L.Olshansky. Engineering A Conformationally Switchable Artificial Metalloprotein. J.Am.Chem.Soc. V. 144 21606 2022.
ISSN: ESSN 1520-5126
PubMed: 36378237
DOI: 10.1021/JACS.2C08885