Potassium in PDB 7lgt: Hla-B*07:02 in Complex with 229E-Derived Coronavirus Nucleocapsid Peptide N75-83

The structure of Hla-B*07:02 in Complex with 229E-Derived Coronavirus Nucleocapsid Peptide N75-83, PDB code: 7lgt was solved by S.Gras, C.Szeto, D.S.M.Chatzileontiadou, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	42.06 / 1.97
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	57.144, 62.854, 63.01, 77.15, 77, 77.86
R / Rfree (%)	18.9 / 24.6

The structure of Hla-B*07:02 in Complex with 229E-Derived Coronavirus Nucleocapsid Peptide N75-83 also contains other interesting chemical elements:

Sodium	(Na)	4 atoms
Chlorine	(Cl)	9 atoms
Zinc	(Zn)	11 atoms
Bromine	(Br)	1 atom

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

Binding sites:

The binding sites of Potassium atom in the Hla-B*07:02 in Complex with 229E-Derived Coronavirus Nucleocapsid Peptide N75-83 (pdb code 7lgt). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 12 binding sites of Potassium where determined in the Hla-B*07:02 in Complex with 229E-Derived Coronavirus Nucleocapsid Peptide N75-83, PDB code: 7lgt:
Jump to Potassium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Potassium binding site 1 out of 12 in the Hla-B*07:02 in Complex with 229E-Derived Coronavirus Nucleocapsid Peptide N75-83


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Hla-B*07:02 in Complex with 229E-Derived Coronavirus Nucleocapsid Peptide N75-83 within 5.0Å range: probe atom residue distance (Å) B Occ A:K313 b:38.5 occ:1.00 CA A:GLU58 3.7 34.6 1.0 OD2 A:ASP61 3.8 61.3 1.0 N A:GLU58 3.8 29.7 1.0 CB A:GLU58 4.0 32.4 1.0 C A:PRO57 4.1 35.1 1.0 O A:PRO57 4.3 29.5 1.0 CB A:ASP61 4.5 35.7 1.0 CB A:PRO57 4.5 43.0 1.0 CG A:ASP61 4.5 52.3 1.0 CG A:PRO57 4.7 44.0 1.0 CD C:LYS268 4.9 57.6 1.0 CA A:PRO57 5.0 29.5 1.0

Potassium binding site 2 out of 12 in the Hla-B*07:02 in Complex with 229E-Derived Coronavirus Nucleocapsid Peptide N75-83


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Hla-B*07:02 in Complex with 229E-Derived Coronavirus Nucleocapsid Peptide N75-83 within 5.0Å range: probe atom residue distance (Å) B Occ A:K314 b:42.8 occ:1.00 OD2 A:ASP114 2.7 36.8 1.0 NE2 F:HIS5 3.4 29.9 1.0 CB A:ARG156 3.5 31.6 1.0 CG A:ARG156 3.8 27.1 1.0 CD2 A:LEU160 3.8 20.6 1.0 CG A:LEU160 3.8 20.8 1.0 CG A:ASP114 3.8 29.3 1.0 CD2 A:TYR159 3.8 20.0 1.0 CA A:ARG156 3.9 26.2 1.0 O A:ARG156 4.0 18.2 1.0 CD2 A:TYR99 4.0 18.3 1.0 CE1 F:HIS5 4.0 29.2 1.0 CD1 A:LEU160 4.2 18.2 1.0 CB A:TYR99 4.3 16.3 1.0 CG A:TYR99 4.3 16.4 1.0 CB A:ASP114 4.3 18.8 1.0 C A:ARG156 4.3 23.3 1.0 CD F:LYS3 4.3 37.2 1.0 CD2 F:HIS5 4.4 27.9 1.0 CE2 A:TYR159 4.5 19.3 1.0 CD A:ARG156 4.5 36.0 1.0 CG A:TYR159 4.7 23.3 1.0 CE2 A:TYR99 4.7 15.0 1.0 CB A:TYR159 4.8 19.5 1.0 O A:HIS113 4.8 20.7 1.0 NH1 A:ARG156 4.8 22.0 1.0 OD1 A:ASP114 4.8 28.1 1.0

Potassium binding site 3 out of 12 in the Hla-B*07:02 in Complex with 229E-Derived Coronavirus Nucleocapsid Peptide N75-83


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Hla-B*07:02 in Complex with 229E-Derived Coronavirus Nucleocapsid Peptide N75-83 within 5.0Å range: probe atom residue distance (Å) B Occ A:K315 b:44.1 occ:1.00 O A:ALA149 3.5 35.2 1.0 O A:HOH457 3.8 33.0 1.0 C A:ALA149 3.9 34.3 1.0 CB A:ALA149 4.0 31.7 1.0 N A:ALA150 4.3 30.4 1.0 CA A:ALA150 4.3 32.5 1.0 CA A:ALA149 4.6 36.1 1.0 CB A:ALA150 5.0 24.0 1.0

Potassium binding site 4 out of 12 in the Hla-B*07:02 in Complex with 229E-Derived Coronavirus Nucleocapsid Peptide N75-83


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of Hla-B*07:02 in Complex with 229E-Derived Coronavirus Nucleocapsid Peptide N75-83 within 5.0Å range: probe atom residue distance (Å) B Occ A:K316 b:51.1 occ:1.00 CD A:LYS178 3.8 65.7 1.0 CB A:TRP51 3.9 33.9 1.0 CE A:LYS178 4.2 73.0 1.0 CD1 A:TRP51 4.3 31.6 1.0 CA A:TRP51 4.4 32.3 1.0 N A:TRP51 4.5 35.5 1.0 CA A:GLY175 4.5 34.0 1.0 CG A:TRP51 4.6 31.0 1.0 O A:ASN174 4.6 42.9 1.0 CG A:LYS178 4.7 55.8 1.0 CB A:LYS178 4.9 56.4 1.0 C A:GLY175 4.9 43.2 1.0 CB A:PRO50 4.9 47.1 1.0 O A:GLY175 5.0 40.5 1.0

Potassium binding site 5 out of 12 in the Hla-B*07:02 in Complex with 229E-Derived Coronavirus Nucleocapsid Peptide N75-83


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 5 of Hla-B*07:02 in Complex with 229E-Derived Coronavirus Nucleocapsid Peptide N75-83 within 5.0Å range: probe atom residue distance (Å) B Occ B:K106 b:46.8 occ:1.00 N B:GLU69 3.7 27.3 1.0 CA B:THR68 4.0 17.4 1.0 O B:LYS48 4.2 41.1 1.0 C B:THR68 4.3 24.1 1.0 OG1 B:THR68 4.4 25.6 1.0 CB B:GLU69 4.4 30.9 1.0 O B:TYR67 4.5 22.6 1.0 CE2 B:PHE22 4.6 34.8 1.0 CA B:GLU69 4.7 27.2 1.0 CB B:THR68 4.7 22.9 1.0 CD2 B:TYR67 4.7 35.9 1.0 CE2 B:TYR67 4.8 37.9 1.0 N B:THR68 4.8 21.9 1.0 OE1 B:GLU69 4.9 67.5 1.0 CB B:GLU50 4.9 31.7 1.0 C B:LYS48 5.0 38.6 1.0 C B:TYR67 5.0 19.3 1.0

Potassium binding site 6 out of 12 in the Hla-B*07:02 in Complex with 229E-Derived Coronavirus Nucleocapsid Peptide N75-83


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 6 of Hla-B*07:02 in Complex with 229E-Derived Coronavirus Nucleocapsid Peptide N75-83 within 5.0Å range: probe atom residue distance (Å) B Occ B:K107 b:45.6 occ:1.00 O B:HOH263 2.6 34.4 1.0 O A:HOH492 3.2 41.5 1.0 CE1 B:TYR67 3.8 33.9 1.0 CB B:SER52 3.8 22.2 1.0 O A:HOH460 4.0 39.4 1.0 CD2 B:LEU65 4.1 18.0 1.0 OH B:TYR67 4.3 51.8 1.0 CZ B:TYR67 4.3 42.6 1.0 CA B:SER52 4.4 22.8 1.0 O A:GLY237 4.4 31.5 1.0 CD1 B:TYR67 4.5 26.8 1.0 CA A:GLY237 4.7 26.3 1.0 N B:SER52 4.8 23.5 1.0 O A:HOH430 4.8 21.4 1.0 OG B:SER52 4.9 24.3 1.0 C A:GLY237 5.0 31.4 1.0 CG B:LEU65 5.0 18.8 1.0

Potassium binding site 7 out of 12 in the Hla-B*07:02 in Complex with 229E-Derived Coronavirus Nucleocapsid Peptide N75-83


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 7 of Hla-B*07:02 in Complex with 229E-Derived Coronavirus Nucleocapsid Peptide N75-83 within 5.0Å range: probe atom residue distance (Å) B Occ C:K308 b:35.2 occ:1.00 N C:HIS191 3.6 22.8 1.0 O C:HIS191 3.8 28.9 1.0 CB C:THR190 3.9 22.6 1.0 CA C:THR190 3.9 25.2 1.0 CZ3 C:TRP274 3.9 31.1 1.0 CH2 C:TRP274 4.0 34.3 1.0 CG2 C:THR190 4.0 29.5 1.0 O C:HOH464 4.3 32.5 1.0 C C:THR190 4.3 24.4 1.0 CA C:HIS191 4.5 24.4 1.0 C C:HIS191 4.6 31.3 1.0 CB C:HIS191 4.7 29.9 1.0 NE2 C:HIS192 4.8 55.3 1.0 O C:VAL189 5.0 24.0 1.0

Potassium binding site 8 out of 12 in the Hla-B*07:02 in Complex with 229E-Derived Coronavirus Nucleocapsid Peptide N75-83


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 8 of Hla-B*07:02 in Complex with 229E-Derived Coronavirus Nucleocapsid Peptide N75-83 within 5.0Å range: probe atom residue distance (Å) B Occ C:K309 b:29.1 occ:1.00 O C:HOH456 3.7 23.1 1.0 N C:ALA139 3.7 20.8 1.0 CB C:THR138 3.8 25.8 1.0 CE1 C:TYR85 4.1 34.7 1.0 N C:THR138 4.1 17.8 1.0 OG1 C:THR138 4.2 28.8 1.0 CD1 C:TYR85 4.3 30.2 1.0 CA C:THR138 4.3 23.0 1.0 CB C:ALA139 4.3 23.6 1.0 CG C:ASP137 4.4 25.2 1.0 C C:THR138 4.5 21.0 1.0 CB C:ASP137 4.5 21.2 1.0 OD2 C:ASP137 4.6 25.3 1.0 CA C:ALA139 4.6 17.1 1.0 OD1 C:ASP137 4.8 17.6 1.0 CG2 C:THR138 4.8 20.9 1.0

Potassium binding site 9 out of 12 in the Hla-B*07:02 in Complex with 229E-Derived Coronavirus Nucleocapsid Peptide N75-83


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 9 of Hla-B*07:02 in Complex with 229E-Derived Coronavirus Nucleocapsid Peptide N75-83 within 5.0Å range: probe atom residue distance (Å) B Occ C:K310 b:42.1 occ:1.00 O D:HOH220 2.6 52.5 1.0 CD C:LYS186 3.3 46.5 1.0 CB C:LEU206 4.0 34.1 1.0 CE C:LYS186 4.1 54.0 1.0 CD D:PRO14 4.2 44.7 1.0 CG C:LYS186 4.4 44.2 1.0 CB C:LYS186 4.4 33.6 1.0 CD1 C:LEU206 4.6 35.8 1.0 C C:LEU206 4.6 28.9 1.0 N C:GLY207 4.6 25.2 1.0 CA C:GLY207 4.6 30.2 1.0 O C:LEU206 4.7 30.7 1.0 CG D:PRO14 4.8 51.1 1.0 ND1 D:HIS13 4.9 56.7 1.0 CG C:LEU206 5.0 32.1 1.0

Potassium binding site 10 out of 12 in the Hla-B*07:02 in Complex with 229E-Derived Coronavirus Nucleocapsid Peptide N75-83


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 10 of Hla-B*07:02 in Complex with 229E-Derived Coronavirus Nucleocapsid Peptide N75-83 within 5.0Å range: probe atom residue distance (Å) B Occ C:K311 b:47.2 occ:1.00 CE1 C:HIS197 3.6 50.6 1.0 OD2 C:ASP196 4.0 50.7 1.0 NE2 C:HIS197 4.1 52.1 1.0 CB C:ASP196 4.2 43.0 1.0 ND1 C:HIS197 4.4 51.4 1.0 CG C:ASP196 4.6 41.0 1.0

K.E.Lineburg, E.J.Grant, S.Swaminathan, D.S.Chatzileontiadou, C.Szeto, H.Sloane, A.Panikkar, J.Raju, P.Crooks, S.Rehan, A.T.Nguyen, L.Lekieffre, M.A.Neller, Z.W.M.Tong, D.Jayasinghe, K.Y.Chew, C.A.Lobos, H.Halim, J.M.Burrows, A.Riboldi-Tunnicliffe, W.Chen, L.D'orsogna, R.Khanna, K.R.Short, C.Smith, S.Gras. CD8+ T Cells Specific For An Immunodominant Sars-Cov-2 Nucleocapsid Epitope Cross-React with Selective Seasonal Coronaviruses Immunity 2021.
ISSN: ISSN 1074-7613
DOI: 10.1016/J.IMMUNI.2021.04.006