Calcium in PDB 9lsa: Crystal Structure of MRFP1 with A Grafted Calcium-Binding Sequence and One Bound Calcium Ion in A Calcium-Containing Solution

The structure of Crystal Structure of MRFP1 with A Grafted Calcium-Binding Sequence and One Bound Calcium Ion in A Calcium-Containing Solution, PDB code: 9lsa was solved by R.Uehara, Y.Kamiya, S.Maeda, K.Okamoto, S.Toya, R.Chiba, H.Amesaka, K.Takano, H.Matsumura, S.-I.Tanaka, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	47.10 / 1.62
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	56.27, 86.08, 109.99, 90, 90, 90
R / Rfree (%)	17.4 / 18.9

The binding sites of Calcium atom in the Crystal Structure of MRFP1 with A Grafted Calcium-Binding Sequence and One Bound Calcium Ion in A Calcium-Containing Solution (pdb code 9lsa). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Crystal Structure of MRFP1 with A Grafted Calcium-Binding Sequence and One Bound Calcium Ion in A Calcium-Containing Solution, PDB code: 9lsa:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Crystal Structure of MRFP1 with A Grafted Calcium-Binding Sequence and One Bound Calcium Ion in A Calcium-Containing Solution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure of MRFP1 with A Grafted Calcium-Binding Sequence and One Bound Calcium Ion in A Calcium-Containing Solution within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca301 b:23.4 occ:1.00 OD1 A:ASP156 2.3 28.3 1.0 O A:GLU160 2.3 22.4 1.0 OD1 A:ASP158 2.4 26.2 1.0 OD1 A:ASP154 2.4 26.1 1.0 OE1 A:GLU162 2.4 23.4 1.0 O A:HOH424 2.6 35.6 1.0 OE2 A:GLU162 2.8 24.9 1.0 CD A:GLU162 2.9 22.7 1.0 CG A:ASP158 3.3 30.5 1.0 CG A:ASP156 3.4 34.3 1.0 C A:GLU160 3.4 22.3 1.0 CG A:ASP154 3.5 25.5 1.0 OD2 A:ASP158 3.7 31.1 1.0 N A:GLU160 4.0 23.2 1.0 OD2 A:ASP156 4.0 38.0 1.0 CA A:GLU160 4.1 24.8 1.0 CA A:ASP154 4.2 21.1 1.0 N A:ASP156 4.2 25.9 1.0 CB A:ASP154 4.2 20.4 1.0 CB A:GLU160 4.3 30.1 1.0 OD2 A:ASP154 4.3 26.7 1.0 N A:ASP158 4.3 26.7 1.0 N A:GLY155 4.4 22.2 1.0 CG A:GLU162 4.4 19.1 1.0 CB A:ASP158 4.5 28.4 1.0 CB A:ASP156 4.5 31.3 1.0 N A:ALA161 4.5 20.3 1.0 N A:GLY157 4.7 31.5 1.0 C A:ALA161 4.7 19.4 1.0 CA A:ASP156 4.7 28.2 1.0 C A:ASP154 4.7 24.0 1.0 N A:GLU162 4.7 18.0 1.0 CA A:ALA161 4.8 18.0 1.0 N A:GLY159 4.8 26.0 1.0 C A:ASP156 4.8 31.5 1.0 CA A:ASP158 4.8 27.6 1.0 C A:ASP158 5.0 29.3 1.0

Calcium binding site 2 out of 2 in the Crystal Structure of MRFP1 with A Grafted Calcium-Binding Sequence and One Bound Calcium Ion in A Calcium-Containing Solution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Crystal Structure of MRFP1 with A Grafted Calcium-Binding Sequence and One Bound Calcium Ion in A Calcium-Containing Solution within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca301 b:27.4 occ:1.00 OD1 B:ASP156 2.1 29.8 1.0 OD1 B:ASP158 2.2 28.7 1.0 OD1 B:ASP154 2.3 25.0 1.0 O B:GLU160 2.3 20.8 1.0 OE1 B:GLU162 2.3 27.4 1.0 OE2 B:GLU162 2.7 30.8 1.0 CD B:GLU162 2.9 25.0 1.0 CG B:ASP156 3.1 34.8 1.0 CG B:ASP158 3.1 30.5 1.0 C B:GLU160 3.4 21.7 1.0 CG B:ASP154 3.4 24.8 1.0 O B:HOH433 3.4 32.8 1.0 OD2 B:ASP158 3.5 35.4 1.0 OD2 B:ASP156 3.5 42.8 1.0 N B:GLU160 3.9 24.5 1.0 N B:ASP156 4.0 30.7 1.0 CA B:GLU160 4.1 23.9 1.0 CA B:ASP154 4.2 22.4 1.0 CB B:ASP154 4.2 22.8 1.0 N B:GLY155 4.2 24.0 1.0 CB B:GLU160 4.3 28.4 1.0 N B:ASP158 4.3 28.8 1.0 CB B:ASP156 4.3 30.0 1.0 OD2 B:ASP154 4.3 29.2 1.0 CG B:GLU162 4.4 23.3 1.0 CB B:ASP158 4.4 30.2 1.0 CA B:ASP156 4.5 31.7 1.0 N B:ALA161 4.5 21.5 1.0 N B:GLY157 4.6 31.9 1.0 C B:ASP156 4.6 33.8 1.0 C B:ASP154 4.7 26.0 1.0 C B:ALA161 4.7 20.3 1.0 N B:GLU162 4.7 19.9 1.0 CA B:ASP158 4.7 29.8 1.0 N B:GLY159 4.7 28.8 1.0 CA B:ALA161 4.8 20.7 1.0 C B:ASP158 4.8 27.6 1.0 C B:GLY159 5.0 26.7 1.0 CB B:GLU162 5.0 23.9 1.0

R.Uehara, Y.Kamiya, S.Maeda, K.Okamoto, S.Toya, R.Chiba, H.Amesaka, K.Takano, H.Matsumura, S.I.Tanaka. Enhanced Secretion Through Type 1 Secretion System By Grafting A Calcium-Binding Sequence to Modify the Folding of Cargo Proteins Protein Sci. V. 34 2025.
ISSN: ESSN 1469-896X
DOI: 10.1002/PRO.70165