Calcium in PDB 1ek3: Kappa-4 Immunoglobulin Vl, Rec

The structure of Kappa-4 Immunoglobulin Vl, Rec, PDB code: 1ek3 was solved by P.R.Pokkuluri, D.-B.Huang, R.Raffen, F.J.Stevens, M.Schiffer, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	7.99 / 1.90
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	36.580, 66.910, 91.500, 90.00, 90.00, 90.00
R / Rfree (%)	18.7 / 23.7

The structure of Kappa-4 Immunoglobulin Vl, Rec also contains other interesting chemical elements:

Chlorine

(Cl)

1 atom

The binding sites of Calcium atom in the Kappa-4 Immunoglobulin Vl, Rec (pdb code 1ek3). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Kappa-4 Immunoglobulin Vl, Rec, PDB code: 1ek3:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Kappa-4 Immunoglobulin Vl, Rec


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Kappa-4 Immunoglobulin Vl, Rec within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca498 b:13.2 occ:1.00 O A:HOH527 2.4 13.9 1.0 O A:HOH503 2.4 30.3 1.0 OG A:SER14 2.5 9.4 1.0 OE1 A:GLU17 2.5 17.2 1.0 OE2 A:GLU17 2.7 22.9 1.0 CD A:GLU17 2.9 18.4 1.0 CB A:SER14 3.5 9.8 1.0 N A:SER14 4.1 8.5 1.0 O A:HOH501 4.1 15.0 1.0 O A:HOH510 4.2 10.5 1.0 CG A:GLU17 4.3 16.4 1.0 O A:HOH644 4.4 38.2 1.0 CA A:SER14 4.4 9.9 1.0 O A:HOH726 4.7 26.5 1.0 O A:HOH674 4.8 25.2 1.0 O A:HOH502 5.0 8.4 1.0

Calcium binding site 2 out of 2 in the Kappa-4 Immunoglobulin Vl, Rec


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Kappa-4 Immunoglobulin Vl, Rec within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca499 b:19.7 occ:1.00 OD1 A:ASP29 2.2 23.4 1.0 O A:HOH693 2.3 22.3 1.0 O A:SER27E 2.4 14.8 1.0 O A:HOH522 2.6 28.8 1.0 CG A:ASP29 3.2 21.8 1.0 C A:SER27E 3.5 13.6 1.0 OD2 A:ASP29 3.6 21.9 1.0 CA A:SER27E 4.1 14.4 1.0 CB A:SER27E 4.4 15.2 1.0 O A:HOH521 4.4 11.2 1.0 CB A:ASP29 4.5 20.0 1.0 O A:HOH537 4.5 14.5 1.0 N A:SER27F 4.6 13.4 1.0 O A:HOH556 4.7 37.5 1.0 N A:ASP29 4.7 17.1 1.0 CA A:ASP29 4.7 18.1 1.0 CA A:SER27F 4.9 15.1 1.0 C A:SER27F 5.0 15.7 1.0

P.R.Pokkuluri, D.-B.Huang, R.Raffen, F.J.Stevens, M.Schiffer. The Structure of Amyloidogenic Kappa-4 Immunoglobulin Vl, Rec To Be Published.