Calcium in PDB 5xnd: Solution Structure of the Major Fish Allergen Parvalbumin Sco J 1 Derived From the Pacific Mackerel

The binding sites of Calcium atom in the Solution Structure of the Major Fish Allergen Parvalbumin Sco J 1 Derived From the Pacific Mackerel (pdb code 5xnd). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Solution Structure of the Major Fish Allergen Parvalbumin Sco J 1 Derived From the Pacific Mackerel, PDB code: 5xnd:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Solution Structure of the Major Fish Allergen Parvalbumin Sco J 1 Derived From the Pacific Mackerel


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Solution Structure of the Major Fish Allergen Parvalbumin Sco J 1 Derived From the Pacific Mackerel within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca201 b:64.1 occ:1.00 H A:SER56 2.6 75.3 1.0 HA A:ASP52 2.7 20.2 1.0 OE1 A:GLU63 2.8 2.2 1.0 OE2 A:GLU63 2.8 15.5 1.0 O A:PHE58 2.8 53.4 1.0 OD1 A:ASP52 2.8 21.1 1.0 OG A:SER56 2.8 73.4 1.0 HG A:SER56 2.9 62.2 1.0 CG A:ASP52 3.1 52.4 1.0 CD A:GLU63 3.1 44.4 1.0 OD1 A:ASP54 3.2 51.2 1.0 HB3 A:ASP52 3.4 74.2 1.0 CA A:ASP52 3.5 32.4 1.0 CB A:ASP52 3.5 42.4 1.0 N A:SER56 3.6 21.4 1.0 H A:ASP54 3.6 3.3 1.0 OD2 A:ASP54 3.6 2.0 1.0 HD2 A:ASP52 3.6 35.1 1.0 CG A:ASP54 3.6 15.4 1.0 H A:LYS55 3.7 53.3 1.0 OD2 A:ASP52 3.7 1.1 1.0 HG13 A:ILE59 3.8 1.5 1.0 HA A:ILE59 3.8 24.1 1.0 HA A:LYS55 3.8 24.3 1.0 H A:GLN53 3.8 21.2 1.0 HG12 A:ILE59 3.9 23.1 1.0 H A:GLY57 4.0 62.5 1.0 N A:LYS55 4.0 74.4 1.0 C A:PHE58 4.0 32.2 1.0 CB A:SER56 4.1 73.4 1.0 H A:PHE58 4.2 55.5 1.0 C A:ASP52 4.3 35.1 1.0 CA A:LYS55 4.3 25.4 1.0 N A:GLN53 4.3 71.1 1.0 HE2 A:GLU60 4.3 55.1 1.0 CA A:SER56 4.3 22.4 1.0 CG1 A:ILE59 4.4 62.4 1.0 C A:LYS55 4.4 4.2 1.0 N A:ASP54 4.5 23.2 1.0 HB3 A:GLU63 4.5 10.0 1.0 N A:GLY57 4.6 35.1 1.0 HB2 A:ASP52 4.6 24.3 1.0 CG A:GLU63 4.6 20.3 1.0 HB3 A:SER56 4.6 54.4 1.0 N A:ASP52 4.6 11.2 1.0 C A:ASP54 4.6 53.4 1.0 N A:PHE58 4.6 13.2 1.0 CA A:ILE59 4.7 53.4 1.0 N A:ILE59 4.8 44.0 1.0 HB2 A:SER56 4.8 34.5 1.0 HE2 A:PHE48 4.8 52.3 1.0 C A:SER56 4.8 3.4 1.0 H A:ASP52 4.9 23.3 1.0 CB A:ASP54 4.9 2.5 1.0 CA A:PHE58 4.9 42.0 1.0 CA A:ASP54 5.0 64.4 1.0 CB A:GLU63 5.0 21.2 1.0 HD3 A:LYS55 5.0 22.2 1.0

Calcium binding site 2 out of 2 in the Solution Structure of the Major Fish Allergen Parvalbumin Sco J 1 Derived From the Pacific Mackerel


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Solution Structure of the Major Fish Allergen Parvalbumin Sco J 1 Derived From the Pacific Mackerel within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca202 b:23.4 occ:1.00 HD2 A:ASP95 2.7 31.4 1.0 OD1 A:ASP91 2.8 71.1 1.0 O A:LYS97 2.8 23.4 1.0 OE2 A:GLU102 2.8 65.5 1.0 OD1 A:ASP95 2.8 43.2 1.0 OE1 A:GLU102 2.8 4.4 1.0 H A:GLY99 3.0 74.2 1.0 CD A:GLU102 3.1 53.3 1.0 OD1 A:ASP93 3.2 62.5 1.0 HA A:ILE98 3.3 70.3 1.0 OD2 A:ASP95 3.4 13.1 1.0 CG A:ASP95 3.5 62.1 1.0 OD2 A:ASP93 3.6 4.3 1.0 CG A:ASP93 3.6 3.3 1.0 C A:LYS97 3.7 52.0 1.0 HB2 A:LYS97 3.9 53.2 1.0 N A:GLY99 3.9 61.4 1.0 CG A:ASP91 4.0 12.6 1.0 CA A:ILE98 4.2 60.3 1.0 N A:ILE98 4.3 43.4 1.0 HD1 A:PHE58 4.3 2.2 1.0 H A:LYS97 4.3 3.1 1.0 HB2 A:GLU102 4.5 31.4 1.0 C A:ILE98 4.6 34.5 1.0 OD2 A:ASP91 4.6 11.2 1.0 HA3 A:GLY99 4.6 70.4 1.0 CG A:GLU102 4.6 52.2 1.0 HA A:ASP91 4.6 12.2 1.0 CA A:LYS97 4.6 42.2 1.0 HE1 A:PHE58 4.6 5.2 1.0 H A:ASP95 4.7 33.4 1.0 HG12 A:ILE98 4.7 32.2 1.0 CB A:LYS97 4.7 64.3 1.0 CA A:GLY99 4.9 33.3 1.0 HB3 A:ASP93 4.9 4.4 1.0 CB A:ASP95 4.9 0.4 1.0 CB A:ASP93 4.9 41.1 1.0 N A:LYS97 4.9 43.0 1.0 HE3 A:LYS97 5.0 51.4 1.0 HD2 A:ASP91 5.0 32.0 1.0

H.Kumeta, H.Nakayama, K.Ogura. Solution Structure of the Major Fish Allergen Parvalbumin Sco J 1 Derived From the Pacific Mackerel Sci Rep V. 7 17160 2017.
ISSN: ESSN 2045-2322
PubMed: 29215073
DOI: 10.1038/S41598-017-17281-6